Mercurial > repos > iuc > mageck_count

--- a/mageck_count.xml	Sat Feb 17 10:41:26 2018 -0500
+++ b/mageck_count.xml	Wed Apr 04 11:03:29 2018 -0400
@@ -1,5 +1,5 @@
 <?xml version="1.0"?>
-<tool id="mageck_count" name="MAGeCK count" version="@VERSION@.1" >
+<tool id="mageck_count" name="MAGeCK count" version="@VERSION@.2" >
     <description>- collect sgRNA read counts from read mapping files</description>
     <macros>
         <import>mageck_macros.xml</import>
@@ -11,30 +11,40 @@
     <command detect_errors="exit_code"><![CDATA[

 #if str($reads.format_select) == "files":
+    #import re
+    #set $names = []
+    #for $i, $sample in enumerate($reads.sample):

-    #if $reads.sample.is_of_type('fastq.gz', 'fastqsanger.gz'):
-        ln -s '${reads.sample}' 'input.gz' &&
-        #set $infile = 'input.gz'
-    #elif $reads.sample.is_of_type('fastq'):
-        ln -s '${reads.sample}' 'input.fastq' &&
-        #set $infile = 'input.fastq'
-    #elif $reads.sample.is_of_type('bam'):
-        ln -s '${reads.sample}' 'input.bam' &&
-        #set $infile = 'input.bam'
-    #end if
+        #if $sample.is_of_type('fastq.gz', 'fastqsanger.gz'):
+            ln -s '${sample}' input_${i}.gz &&
+            #set $infile = 'input' + str($i) + '.gz'
+        #elif $sample.is_of_type('fastq'):
+            ln -s '${sample}' input_${i}.fastq &&
+            #set $infile = 'input' + str($i) + 'fastq'
+        #elif $sample.is_of_type('bam'):
+            ln -s '${sample}' input_${i}.bam &&
+            #set $infile = 'input' + str($i) + 'bam'
+        #end if
+        #silent $names.append(re.sub('[^\w\-\s]', '_', str($sample.element_identifier)))
+    #end for

 #end if

+
 mageck count

 #if str($reads.format_select) == "files":
-    --fastq $infile
+
     -l '$reads.sgrna_library_file'
+
+    --fastq input_*
+
     #if $reads.sample_label:
         --sample-label '$reads.sample_label'
     #else:
-        --sample-label '$reads.sample.element_identifier'
+        --sample-label ${ ','.join( $names ) }
     #end if
+
 #elif str($reads.format_select) == "table":
     -k '$reads.counts'
     #if '$sgrna_library_file':
@@ -55,7 +65,9 @@
    --trim-5 $adv.trim5
 #end if

---norm-method $adv.norm_method
+#if $adv.norm_method:
+    --norm-method $adv.norm_method
+#end if

 #if $adv.control_sgrna:
     --control-sgrna $adv.control_sgrna
@@ -79,6 +91,7 @@
   &&
   gs -dBATCH -dNOPAUSE -q -dPDFSETTINGS=/prepress -sDEVICE=pdfwrite -sOutputFile=merged.pdf *.pdf
 #end if
+
     ]]></command>
     <inputs>
         <conditional name="reads">
@@ -87,9 +100,11 @@
                 <option value="table">Single Count table</option>
             </param>
             <when value="files">
-                <param name="sample" argument="--fastq" type="data" format="fastq,fastq.gz,bam" multiple="false" label="Sample reads" help="The input reads must be in FASTQ, FASTQ.GZ or BAM format and all files must be in the same format." />
+                <param name="sample" argument="--fastq" type="data" format="fastq,fastq.gz,bam" multiple="true" label="Sample reads" help="The input reads must be in FASTQ, FASTQ.GZ or BAM format and all files must be in the same format." />
                 <param name="sgrna_library_file" type="data" argument="--list-seq" format="txt,tabular,tsv,csv" label="sgRNA library file" help="A library file must be provided with three columns containing the sgRNA ID, sequence, and gene it is targeting, see Help below for more information." />
-                <param name="sample_label" argument="--sample-label" type="text" optional="true" value="" label="Specify sample label" help="By default, the input filename will be used as the sample label. Optionally you can specify a different sample label to use."/>
+                <param name="sample_label" argument="--sample-label" type="text" optional="true" value="" label="Specify sample labels" help="By default, the input filenames will be used as the sample labels. Optionally you can specify different sample labels to use which must be separated by comma (,). Must be equal to the number of samples provided in --fastq option.">
+                    <validator type="regex" message="Please only use letters, numbers or underscores in sample labels, and separate labels by commas">^[\w,]+$</validator>
+                </param>
             </when>
             <when value="table">
                 <param name="counts" argument="-k"  type="data" format="tabular" optional="true" label="Counts Table" help="Alternatively, a tab-separated file of read counts can be used as input. See Help below for format" />
@@ -98,19 +113,20 @@
         </conditional>

         <section name="out" title="Output Options">
-            <param name="countsummaryOpt" type="boolean" truevalue="True" falsevalue="" checked="false" optional="true" label="Output summary statistics" help="Output summary statistics of the fastq files. Default: No" />
-            <param name="pdfreportOpt" argument="--pdf-report" type="boolean" truevalue="--pdf-report" falsevalue="" checked="false" optional="true" label="Output PDF report" help="Generate pdf report of the input file. Default: No" />
-            <param name="unmappedOpt" argument="--unmapped-to-file" type="boolean" truevalue="--unmapped-to-file" falsevalue="" checked="false" optional="true" label="Output unmapped reads" help="Save unmapped reads to file. Default: No" />
-            <param name="rscriptOpt" type="boolean" truevalue="True" falsevalue="" checked="false" optional="true" label="Output R script" help="Output the R script used to generate the plots in the pdf report. Default: No" />
-            <param name="logOpt" type="boolean" truevalue="True" falsevalue="" checked="false" label="Output Log file" help="This file includes the logging information, it will list some basic statistics of the dataset at the end" />
+            <param name="countsummaryOpt" type="boolean" truevalue="True" falsevalue="" checked="false" optional="true" label="Output Count Summary file" help="Output summary statistics of the fastq files. Default: No" />
+            <param name="normcountsOpt" type="boolean" truevalue="True" falsevalue="" checked="false" optional="true" label="Output Normalized Counts file" help="Default: No" />
+            <param name="pdfreportOpt" argument="--pdf-report" type="boolean" truevalue="--pdf-report" falsevalue="" checked="false" optional="true"  label="Output plots" help="Generate PDF of the plots. Default: No" />
+            <param name="unmappedOpt" argument="--unmapped-to-file" type="boolean" truevalue="--unmapped-to-file" falsevalue="" checked="false" optional="true" label="Output Unmapped reads" help="Save nmapped reads to file. Default: No" />
+            <param name="rfilesOpt" type="boolean" truevalue="True" falsevalue="" checked="false" optional="true" label="Output R files" help="Output the .R and .Rnw files used to generate the plots in the PDF report. The median-normalized read counts file will also be output as it is required to regenerate the plots. Default: No" />
+            <param name="logOpt" type="boolean" truevalue="True" falsevalue="" checked="false" label="Output Log file" help="This file includes the logging information, it will list some basic statistics of the dataset at the end. Default: No" />
         </section>

         <section name="adv" title="Advanced Options">
-            <param name="gmt_file" argument="--gmt-file" type="data" format="tabular" optional="true" value="" label="Pathway file for QC" help="TThe pathway file used for QC, in GMT format. By default it will use the GMT file provided by MAGeCK" />
+            <param name="gmt_file" argument="--gmt-file" type="data" format="tabular" optional="true" value="" label="Pathway file for QC" help="The pathway file used for QC, in GMT format. By default it will use the GMT file provided by MAGeCK" />
             <param name="trim5" argument="--trim-5" type="integer" min="0" optional="true" label="5' Trim length" help="Length of trimming the 5' of the reads. Default: 0" />
-            <param name="norm_method" argument="--norm-method" type="select" label="Method for normalization" help="Methods include: None (no normalization), Median (median normalization), Total (normalization by total read counts), Control (normalization by control sgRNAs specified by the --control-sgrna option). Default: Median" >
+            <param name="norm_method" argument="--norm-method" type="select" optional="true" label="Method for normalization" help="Methods include: None (no normalization), Median (median normalization), Total (normalization by total read counts), Control (normalization by control sgRNAs specified by the --control-sgrna option). Default: Median" >
+                <option value="median" selected="True">Median</option>
                 <option value="none">None</option>
-                <option value="median" selected="True">Median</option>
                 <option value="total">Total</option>
                 <option value="control">Control</option>
             </param>
@@ -123,19 +139,28 @@
     </inputs>

     <outputs>
-        <data name="counts" format="tabular" from_work_dir="*.count.txt" label="${tool.name} on ${on_string}: sgRNA Counts" />
-        <data name="countsummary" format="tabular" from_work_dir="*.countsummary.txt" label="${tool.name} on ${on_string}: sgRNA Count Summary" >
+        <data name="counts" format="tabular" from_work_dir="output.count.txt" label="${tool.name} on ${on_string}: sgRNA Counts" />
+        <data name="countsummary" format="tabular" from_work_dir="output.countsummary.txt" label="${tool.name} on ${on_string}: sgRNA Count Summary" >
             <filter>out['countsummaryOpt'] is True</filter>
         </data>
-        <data name="pdfreport" format="pdf" from_work_dir="merged.pdf" label="${tool.name} on ${on_string}: PDF Report"  >
-            <filter>out['pdfreportOpt'] is True</filter>
+        <data name="normcounts" format="tabular" from_work_dir="output.count_normalized.txt" label="${tool.name} on ${on_string}: Normalized counts" >
+            <filter>out['normcountsOpt'] is True or out['rfilesOpt'] is True</filter>
         </data>
-        <data name="unmapped" format="tabular" from_work_dir="*.unmapped.txt" label="${tool.name} on ${on_string}: Unmapped" >
+        <data name="unmapped" format="tabular" from_work_dir="output.unmapped.txt" label="${tool.name} on ${on_string}: Unmapped" >
             <filter>out['unmappedOpt'] is True</filter>
         </data>
+        <data name="pdfreport" format="pdf" from_work_dir="merged.pdf" label="${tool.name} on ${on_string}: PDF Report" >
+            <filter>out['pdfreportOpt'] is True</filter>
+        </data>
         <data name="log" format="txt" from_work_dir="output.log" label="${tool.name} on ${on_string}: Log" >
             <filter>out['logOpt'] is True</filter>
         </data>
+        <data name="rscript" format="txt" from_work_dir="output_countsummary.R" label="${tool.name} on ${on_string}: R file"  >
+            <filter>out['rfilesOpt'] is True</filter>
+        </data>
+        <data name="rnwfile" format="txt" from_work_dir="output_countsummary.Rnw" label="${tool.name} on ${on_string}: Rnw file"  >
+            <filter>out['rfilesOpt'] is True</filter>
+        </data>
     </outputs>

     <tests>
@@ -144,15 +169,24 @@
             <param name="sgrna_library_file" value="demo/demo2/library.txt" ftype="tabular" />
             <param name="format_select" value="files" />
             <param name="sample" value="test1.fastq.gz" ftype="fastq.gz"/>
-            <output name="counts" file="out.count.fastq.txt"/>
+            <output name="counts" file="out.count.txt"/>
         </test>
-        <!-- Ensure fastq input works -->
+        <!-- Ensure multiple fastq.gz input works with report -->
+        <test expect_num_outputs="2">
+            <param name="sgrna_library_file" value="demo/demo2/library.txt" ftype="tabular" />
+            <param name="format_select" value="files" />
+            <param name="sample" value="test1.fastq.gz,test2.fastq.gz" ftype="fastq.gz"/>
+            <param name="pdfreportOpt" value="True" />
+            <output name="counts" file="out.count_multi.txt"/>
+            <output name="pdfreport" file="out.countsummary_multi.pdf" compare="sim_size" />
+        </test>
+         <!-- Ensure fastq input works -->
         <test expect_num_outputs="1">
             <param name="sgrna_library_file" value="demo/demo2/library.txt" ftype="tabular" />
             <param name="format_select" value="files" />
             <param name="sample" value="demo/demo2/test1.fastq" ftype="fastq"/>
-            <param name="sample_label" value="test1.fastq.gz" />
-            <output name="counts" file="out.count.fastq.txt"/>
+            <param name="sample_label" value="test1_fastq_gz" />
+            <output name="counts" file="out.count.txt"/>
         </test>
         <!-- Ensure BAM input works -->
         <test expect_num_outputs="1">
@@ -162,20 +196,23 @@
             <output name="counts" file="out.count.bam.txt"/>
         </test>
         <!-- Ensure optional outputs work -->
-        <test expect_num_outputs="5">
+        <test expect_num_outputs="8">
             <param name="sgrna_library_file" value="demo/demo2/library.txt" ftype="tabular" />
             <param name="format_select" value="files" />
             <param name="sample" value="test1.fastq.gz" ftype="fastq.gz"/>
             <param name="countsummaryOpt" value="True" />
             <param name="unmappedOpt" value="True" />
             <param name="pdfreportOpt" value="True" />
-            <param name="rscriptOpt" value="True" />
+            <param name="rfilesOpt" value="True" />
             <param name="logOpt" value="True" />
             <output name="counts" file="out.count.fastq.txt"/>
             <output name="countsummary" file="out.countsummary.txt" compare="sim_size"/>
+            <output name="normcounts" file="output.count_normalized.txt"/>
             <output name="log" file="out.count.log.txt" compare="sim_size"/>
             <output name="unmapped" file="out.count.unmapped.txt" />
             <output name="pdfreport" file="out.countsummary.pdf" compare="sim_size" />
+            <output name="rscript" file="out.count.R" />
+            <output name="rnwfile" file="output_countsummary.Rnw" />
         </test>
     </tests>

@@ -190,7 +227,7 @@

 **Inputs**

-**Read file(s)**
+**Read files**

 **MAGeCK count** accepts one or more FASTQ.GZ, FASTQ or BAM files as input.

@@ -224,26 +261,39 @@

 **Outputs**

+This tool outputs
+
+    * an sgRNA Counts table
+
+Optionally, under **Output Options** you can choose to output
+
+    * a Count Summary file
+    * a PDF report
+    * a Normalized Counts table
+    * an Unmapped reads file
+    * the .R and .Rnw files used to generate the plots and PDF
+    * a Log file of the analysis
+
 **sgRNA Count file**

 An example of the sgRNA count output file is shown below. This file can be used with **MAGeCK test**.

 Example:

-    ==============  ========    ================
-    **sgRNA**       **Gene**    **Sample Label**
-    --------------  --------    ----------------
-    A1CF_m52595977  A1CF        213
-    A1CF_m52596017  A1CF        294
-    A1CF_m52596056  A1CF        421
-    A1CF_m52603842  A1CF        274
-    A1CF_m52603847  A1CF        0
-    ==============  ========    ================
+    ==============  ========    =========== ===========
+    **sgRNA**       **Gene**    **Sample1** **Sample2**
+    --------------  --------    ----------- -----------
+    A1CF_m52595977  A1CF        213         199
+    A1CF_m52596017  A1CF        294         164
+    A1CF_m52596056  A1CF        421         378
+    A1CF_m52603842  A1CF        274         281
+    A1CF_m52603847  A1CF        0           0
+    ==============  ========    =========== ===========


 **Count Summary**

-MAGeCK can produce a **Count Summary** file containing statistics of the input file (the statistics of fastq file are also in the PDF report). An example count summary file is shown below.
+MAGeCK can produce a **Count Summary** file containing statistics of the input files (the statistics of fastq files are also in the PDF report). An example count summary file is shown below.

 Example:
--- a/mageck_macros.xml	Sat Feb 17 10:41:26 2018 -0500
+++ b/mageck_macros.xml	Wed Apr 04 11:03:29 2018 -0400
@@ -1,27 +1,34 @@
 <?xml version="1.0"?>
 <macros>
+
     <token name="@VERSION@">0.5.7</token>
+
     <xml name="requirements">
         <requirements>
             <requirement type="package" version="@VERSION@">mageck</requirement>
-            <!-- needed for pdf report outputs -->
+            <requirement type="package" version="1.14.2">numpy</requirement>
             <requirement type="package" version="3.0.1">r-gplots</requirement>
             <requirement type="package" version="1.8_2">r-xtable</requirement>
             <yield/>
         </requirements>
     </xml>
+
     <xml name="version">
-        <version_command>mageck -v </version_command>
+        <version_command><![CDATA[
+            echo $(mageck -v )", numpy version" $([python -c "import numpy; numpy.version.version"])", gplots version" $(R --vanilla --slave -e "library(gplots); cat(sessionInfo()\$otherPkgs\$gplots\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", xtable version" $(R --vanilla --slave -e "library(xtable); cat(sessionInfo()\$otherPkgs\$xtable\$Version)" 2> /dev/null | grep -v -i "WARNING: ")
+        ]]></version_command>
     </xml>
+
+    <xml name="sort_criteria">
+        <param name="sort_criteria" argument="--sort-criteria" type="select" optional="true" label="Sorting criteria">
+            <option value="neg" selected="True">Negative selection</option>
+            <option value="pos">positive selection</option>
+        </param>
+      </xml>
+
     <xml name="citations">
         <citations>
             <citation type="doi">10.1186/s13059-014-0554-4</citation>
         </citations>
     </xml>
-    <xml name="sort_criteria">
-        <param name="sort_criteria" argument="--sort-criteria" type="select" label="Sorting criteria">
-            <option value="neg" selected="True">Negative selection</option>
-            <option value="pos">positive selection</option>
-        </param>
-      </xml>
 </macros>
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/in.test.sample.txt	Wed Apr 04 11:03:29 2018 -0400
@@ -0,0 +1,1000 @@
+sgRNA	Gene	HL60_initial	KBM7_initial	HL60_final	KBM7_final
+A1CF_m52595977	A1CF	213	274	883	175
+A1CF_m52596017	A1CF	294	412	1554	1891
+A1CF_m52596056	A1CF	421	368	566	759
+A1CF_m52603842	A1CF	274	243	314	855
+A1CF_m52603847	A1CF	0	50	145	266
+A1CF_p52595870	A1CF	623	583	1503	1117
+A1CF_p52595881	A1CF	486	378	1775	1585
+A1CF_p52596023	A1CF	195	429	783	774
+A1CF_p52601638	A1CF	744	459	1233	2407
+A1CF_p52603829	A1CF	76	142	332	471
+AAAS_m53714382	AAAS	704	671	799	1426
+AAAS_m53715169	AAAS	651	627	797	1690
+AAAS_m53715176	AAAS	545	89	392	664
+AAAS_m53715212	AAAS	254	340	429	742
+AAAS_m53715238	AAAS	32	135	421	77
+AAAS_p53714367	AAAS	323	328	652	469
+AAAS_p53714374	AAAS	293	261	856	968
+AAAS_p53714391	AAAS	283	399	954	940
+AAAS_p53714405	AAAS	1119	856	2212	2715
+AAAS_p53714441	AAAS	273	327	1093	829
+AAK1_m69870049	AAK1	364	465	693	2006
+AAK1_m69870056	AAK1	635	707	2234	3515
+AAK1_m69870103	AAK1	485	452	914	629
+AAK1_m69870119	AAK1	405	275	806	837
+AAK1_m69870125	AAK1	274	350	1822	2101
+AAK1_m69870131	AAK1	754	763	1411	2637
+AAK1_m69870137	AAK1	905	294	512	798
+AAK1_p69870063	AAK1	330	167	364	1139
+AAK1_p69870070	AAK1	991	718	1790	1682
+AAK1_p69870105	AAK1	190	163	922	1118
+AATF_m35306444	AATF	449	456	1396	1402
+AATF_m35306475	AATF	493	612	1102	537
+AATF_m35306482	AATF	569	726	743	311
+AATF_m35306509	AATF	250	322	476	204
+AATF_m35307516	AATF	353	356	995	540
+AATF_m35307525	AATF	276	146	514	291
+AATF_p35306410	AATF	1426	1104	2494	1101
+AATF_p35306466	AATF	189	245	289	0
+AATF_p35307505	AATF	677	269	1154	481
+AATF_p35307527	AATF	1487	835	2761	3255
+AATK_m79102275	AATK	621	435	4568	1109
+AATK_m79102281	AATK	465	460	1736	2651
+AATK_m79102298	AATK	726	798	2538	2676
+AATK_m79102320	AATK	1003	655	1932	3223
+AATK_m79102325	AATK	633	722	1874	2030
+AATK_p79102286	AATK	1284	562	1844	1624
+AATK_p79102311	AATK	73	184	843	281
+AATK_p79104850	AATK	298	316	507	602
+AATK_p79104858	AATK	284	346	905	852
+AATK_p79104864	AATK	597	640	2244	2543
+ABCB8_m150725643	ABCB8	407	583	1738	2951
+ABCB8_m150725669	ABCB8	821	425	1510	1077
+ABCB8_m150730720	ABCB8	100	150	464	433
+ABCB8_p150725600	ABCB8	298	225	350	482
+ABCB8_p150725605	ABCB8	102	146	1396	428
+ABCB8_p150725612	ABCB8	251	107	1110	685
+ABCB8_p150725675	ABCB8	642	426	975	2565
+ABCB8_p150730680	ABCB8	526	481	1012	1108
+ABCB8_p150730705	ABCB8	743	522	1400	2105
+ABCB8_p150730712	ABCB8	170	215	999	1004
+ABCC1_m16043636	ABCC1	48	208	563	817
+ABCC1_m16043645	ABCC1	1095	551	1280	1793
+ABCC1_m16101705	ABCC1	873	593	1320	1374
+ABCC1_m16101777	ABCC1	476	410	1487	1117
+ABCC1_m16101788	ABCC1	453	296	754	857
+ABCC1_m16101799	ABCC1	497	511	779	1023
+ABCC1_p16043597	ABCC1	209	232	484	581
+ABCC1_p16101667	ABCC1	218	140	392	695
+ABCC1_p16101710	ABCC1	36	15	323	392
+ABCC1_p16101721	ABCC1	1007	684	1399	2741
+ABCF1_m30539291	ABCF1	147	163	305	871
+ABCF1_p30539251	ABCF1	767	675	589	647
+ABCF1_p30539272	ABCF1	756	585	1503	1612
+ABCF1_p30545181	ABCF1	792	678	2674	3651
+ABCF1_p30545587	ABCF1	33	140	1055	435
+ABCF1_p30545605	ABCF1	341	218	692	550
+ABCF1_p30545610	ABCF1	1344	1012	2581	2254
+ABCF1_p30545638	ABCF1	145	212	641	844
+ABCF1_p30545878	ABCF1	1369	1120	1687	755
+ABCF1_p30545888	ABCF1	180	199	701	335
+ABHD14B_m52004073	ABHD14B	322	191	616	546
+ABHD14B_m52004106	ABHD14B	304	222	823	595
+ABHD14B_m52004113	ABHD14B	394	367	1469	905
+ABHD14B_m52004122	ABHD14B	1220	1034	1559	2275
+ABHD14B_p52004005	ABHD14B	127	234	529	826
+ABHD14B_p52004011	ABHD14B	341	358	1060	1399
+ABHD14B_p52004019	ABHD14B	28	160	268	454
+ABHD14B_p52004061	ABHD14B	265	341	598	324
+ABHD14B_p52004076	ABHD14B	1415	1062	3286	2836
+ABHD14B_p52004124	ABHD14B	584	546	1254	1988
+ABI1_m27149710	ABI1	433	671	1145	574
+ABI1_m27149743	ABI1	961	396	1282	1685
+ABI1_m27149751	ABI1	839	489	1142	929
+ABI1_m27149764	ABI1	139	187	322	470
+ABI1_p27112164	ABI1	1163	932	1935	2368
+ABI1_p27112174	ABI1	1010	740	3367	2458
+ABI1_p27112180	ABI1	310	214	532	667
+ABI1_p27149695	ABI1	158	43	242	324
+ABI1_p27149701	ABI1	475	439	2839	1808
+ABI1_p27149733	ABI1	84	265	395	348
+ABL1_m133729449	ABL1	408	211	2194	1051
+ABL1_m133729456	ABL1	779	555	1893	837
+ABL1_m133729467	ABL1	670	449	2105	689
+ABL1_m133729488	ABL1	423	367	1091	62
+ABL1_m133729532	ABL1	953	825	3447	2456
+ABL1_m133729594	ABL1	531	283	1802	137
+ABL1_p133729441	ABL1	429	235	785	491
+ABL1_p133729469	ABL1	633	614	1603	2103
+ABL1_p133729492	ABL1	752	660	1616	701
+ABL1_p133729502	ABL1	527	298	1071	400
+ABL2_m179100447	ABL2	970	578	2465	2558
+ABL2_m179100544	ABL2	442	151	868	527
+ABL2_m179100554	ABL2	718	407	1451	1761
+ABL2_m179100597	ABL2	423	431	1458	1285
+ABL2_p179095768	ABL2	364	325	1280	822
+ABL2_p179100489	ABL2	1567	840	2727	3472
+ABL2_p179100503	ABL2	647	560	1579	881
+ABL2_p179100524	ABL2	471	266	1198	1935
+ABL2_p179100556	ABL2	412	283	1336	813
+ABL2_p179100578	ABL2	424	321	871	886
+ABLIM2_m8108265	ABLIM2	1080	672	1816	2314
+ABLIM2_m8108274	ABLIM2	372	784	2237	2717
+ABLIM2_m8108279	ABLIM2	458	338	755	1004
+ABLIM2_m8108294	ABLIM2	709	1285	2947	3905
+ABLIM2_m8108316	ABLIM2	198	173	245	304
+ABLIM2_m8160405	ABLIM2	909	1005	2217	2001
+ABLIM2_p8108286	ABLIM2	637	561	1768	2749
+ABLIM2_p8108299	ABLIM2	639	836	2576	3115
+ABLIM2_p8108320	ABLIM2	102	38	155	410
+ABLIM2_p8108331	ABLIM2	885	652	2079	1885
+ABT1_m26597238	ABT1	332	207	495	771
+ABT1_m26597359	ABT1	244	222	940	469
+ABT1_m26597388	ABT1	1186	1115	1327	492
+ABT1_p26597221	ABT1	1087	825	1689	1735
+ABT1_p26597240	ABT1	81	213	294	225
+ABT1_p26597266	ABT1	671	420	520	528
+ABT1_p26597293	ABT1	356	391	534	1045
+ABT1_p26597300	ABT1	1063	430	669	385
+ABT1_p26597313	ABT1	21	101	378	323
+ABT1_p26597361	ABT1	231	252	492	360
+ABTB1_m127395233	ABTB1	407	308	765	550
+ABTB1_m127395403	ABTB1	576	877	765	2182
+ABTB1_m127395808	ABTB1	806	366	1408	1592
+ABTB1_m127395813	ABTB1	335	199	1368	1279
+ABTB1_m127395855	ABTB1	381	500	1765	1327
+ABTB1_m127395860	ABTB1	643	621	1404	2053
+ABTB1_p127395220	ABTB1	444	627	1291	518
+ABTB1_p127395242	ABTB1	573	802	1353	1655
+ABTB1_p127395252	ABTB1	358	225	652	1348
+ABTB1_p127395834	ABTB1	342	485	656	1442
+ACAD11_m132378487	ACAD11	372	404	1310	1207
+ACAD11_m132378519	ACAD11	273	248	719	639
+ACAD11_m132378564	ACAD11	673	870	1657	2599
+ACAD11_m132378578	ACAD11	358	334	789	810
+ACAD11_p132378460	ACAD11	1103	627	1294	1663
+ACAD11_p132378489	ACAD11	510	745	1345	1522
+ACAD11_p132378501	ACAD11	725	418	1432	1513
+ACAD11_p132378525	ACAD11	557	648	1139	2025
+ACAD11_p132378547	ACAD11	35	262	398	250
+ACAD11_p132378566	ACAD11	462	438	713	1096
+ACAD9_m128598565	ACAD9	503	521	4007	3584
+ACAD9_m128598607	ACAD9	91	121	326	476
+ACAD9_m128598614	ACAD9	460	544	2733	923
+ACAD9_m128598631	ACAD9	272	343	446	699
+ACAD9_m128598636	ACAD9	388	297	489	253
+ACAD9_p128598519	ACAD9	433	425	921	393
+ACAD9_p128598525	ACAD9	391	299	430	1624
+ACAD9_p128598545	ACAD9	564	619	1072	706
+ACAD9_p128598551	ACAD9	789	752	1776	2200
+ACAD9_p128598592	ACAD9	627	436	791	821
+ACAT2_m160183168	ACAT2	448	147	568	619
+ACAT2_m160183956	ACAT2	542	577	2289	1422
+ACAT2_m160183968	ACAT2	1236	1603	2875	3082
+ACAT2_p160183107	ACAT2	1384	1266	1743	3058
+ACAT2_p160183121	ACAT2	1135	1085	3564	2633
+ACAT2_p160183133	ACAT2	354	378	1046	1292
+ACAT2_p160183141	ACAT2	846	475	973	2007
+ACAT2_p160183152	ACAT2	1487	1057	3365	4954
+ACAT2_p160183940	ACAT2	15	0	41	39
+ACAT2_p160183972	ACAT2	94	156	700	1177
+ACBD6_m180471277	ACBD6	800	292	1321	827
+ACBD6_m180471338	ACBD6	764	459	692	1002
+ACBD6_m180471378	ACBD6	403	325	1241	864
+ACBD6_p180471251	ACBD6	332	115	896	609
+ACBD6_p180471256	ACBD6	73	161	877	1202
+ACBD6_p180471263	ACBD6	242	161	441	371
+ACBD6_p180471279	ACBD6	539	700	1081	808
+ACBD6_p180471286	ACBD6	492	567	1482	749
+ACBD6_p180471344	ACBD6	708	728	2207	2977
+ACBD6_p180471350	ACBD6	413	303	1196	1451
+ACD_m67694254	ACD	799	526	2606	3199
+ACD_m67694260	ACD	809	931	2093	1708
+ACD_m67694316	ACD	190	254	648	674
+ACD_m67694376	ACD	1262	800	1718	2069
+ACD_p67694194	ACD	979	589	1841	2020
+ACD_p67694285	ACD	414	279	874	1102
+ACD_p67694333	ACD	209	137	249	449
+ACD_p67694350	ACD	370	138	469	679
+ACD_p67694355	ACD	512	448	1735	1603
+ACD_p67694362	ACD	1082	618	2113	2505
+ACHE_m100491721	ACHE	732	492	1307	991
+ACHE_m100491729	ACHE	331	468	1364	1276
+ACHE_m100491735	ACHE	1034	902	2107	2308
+ACHE_m100491767	ACHE	1059	990	1539	1648
+ACHE_m100491773	ACHE	384	219	257	395
+ACHE_m100491779	ACHE	191	296	473	883
+ACHE_m100491816	ACHE	201	237	603	592
+ACHE_p100491631	ACHE	368	331	1066	1230
+ACHE_p100491656	ACHE	1787	961	2773	4492
+ACHE_p100491821	ACHE	588	627	606	579
+ACIN1_m23535193	ACIN1	382	464	679	1012
+ACIN1_m23538698	ACIN1	2330	2150	3158	1206
+ACIN1_m23538715	ACIN1	576	555	531	727
+ACIN1_m23538803	ACIN1	1655	1195	1692	272
+ACIN1_m23538815	ACIN1	890	1231	2350	1743
+ACIN1_p23538701	ACIN1	276	151	270	192
+ACIN1_p23538719	ACIN1	436	315	1128	1105
+ACIN1_p23538730	ACIN1	644	265	1051	800
+ACIN1_p23538735	ACIN1	168	100	45	0
+ACIN1_p23538745	ACIN1	387	345	894	473
+ACLY_m40069993	ACLY	863	795	1801	1055
+ACLY_m40070008	ACLY	223	256	82	42
+ACLY_m40070029	ACLY	90	136	195	115
+ACLY_m40070097	ACLY	337	330	443	426
+ACLY_m40070116	ACLY	687	621	1961	1756
+ACLY_p40069998	ACLY	597	403	853	1039
+ACLY_p40070033	ACLY	1085	624	960	223
+ACLY_p40070039	ACLY	214	142	141	629
+ACLY_p40070062	ACLY	349	152	326	221
+ACLY_p40070105	ACLY	518	268	887	1043
+ACO2_m41865159	ACO2	811	495	1351	659
+ACO2_m41895784	ACO2	561	488	1799	2344
+ACO2_m41895810	ACO2	1517	1009	2303	2170
+ACO2_m41895824	ACO2	402	188	463	1188
+ACO2_m41903807	ACO2	323	634	1371	1351
+ACO2_p41865164	ACO2	440	175	1056	852
+ACO2_p41895716	ACO2	206	196	641	842
+ACO2_p41895844	ACO2	180	296	596	1008
+ACO2_p41903797	ACO2	386	375	598	175
+ACO2_p41903813	ACO2	711	275	1887	1213
+ACP1_m264983	ACP1	1432	979	2488	3262
+ACP1_m264989	ACP1	991	751	2780	2161
+ACP1_m272095	ACP1	348	377	785	1370
+ACP1_m272137	ACP1	1177	407	1252	1058
+ACP1_p264954	ACP1	862	787	1473	2180
+ACP1_p272032	ACP1	1100	804	2170	2224
+ACP1_p272042	ACP1	587	667	1412	1531
+ACP1_p272054	ACP1	439	242	245	784
+ACP1_p272099	ACP1	240	183	548	776
+ACP1_p272185	ACP1	1106	449	1508	2250
+ACRC_m70811980	ACRC	314	283	706	1554
+ACRC_m70814198	ACRC	52	51	709	624
+ACRC_p70800656	ACRC	176	386	846	980
+ACRC_p70800697	ACRC	158	384	437	817
+ACRC_p70800703	ACRC	948	829	1648	931
+ACRC_p70800708	ACRC	1630	1375	3904	4302
+ACRC_p70811990	ACRC	337	341	1838	2827
+ACRC_p70814182	ACRC	464	463	2492	2331
+ACRC_p70814187	ACRC	654	618	1521	1582
+ACRC_p70814200	ACRC	1320	726	1494	1929
+ACSL6_m131326625	ACSL6	436	107	1422	1026
+ACSL6_m131326630	ACSL6	702	341	1272	2201
+ACSL6_m131326651	ACSL6	429	390	1691	2488
+ACSL6_m131329874	ACSL6	541	602	2163	1428
+ACSL6_m131329908	ACSL6	688	488	884	734
+ACSL6_p131329816	ACSL6	1223	605	1955	1719
+ACSL6_p131329824	ACSL6	699	551	2121	725
+ACSL6_p131329830	ACSL6	524	414	824	706
+ACSL6_p131329859	ACSL6	165	127	515	533
+ACSL6_p131329878	ACSL6	618	808	1583	2013
+ACSS2_m33470722	ACSS2	500	202	859	662
+ACSS2_m33500924	ACSS2	405	333	1683	1551
+ACSS2_m33500940	ACSS2	1126	531	1695	3562
+ACSS2_m33500955	ACSS2	426	498	820	1500
+ACSS2_m33501214	ACSS2	463	421	845	1776
+ACSS2_m33501222	ACSS2	451	438	1371	1376
+ACSS2_p33470688	ACSS2	599	350	1065	1819
+ACSS2_p33500893	ACSS2	64	252	1128	1621
+ACSS2_p33500928	ACSS2	272	454	1819	1851
+ACSS2_p33501184	ACSS2	475	299	799	608
+ACTL6A_m179287950	ACTL6A	259	218	304	159
+ACTL6A_m179287986	ACTL6A	450	202	470	590
+ACTL6A_p179287878	ACTL6A	353	283	157	417
+ACTL6A_p179287892	ACTL6A	283	377	1190	1878
+ACTL6A_p179287902	ACTL6A	513	498	988	1159
+ACTL6A_p179287911	ACTL6A	872	670	1947	1268
+ACTL6A_p179287920	ACTL6A	818	657	1910	1654
+ACTL6A_p179287966	ACTL6A	1006	410	869	304
+ACTL6A_p179287976	ACTL6A	216	555	1954	1047
+ACTL6A_p179291144	ACTL6A	126	253	232	721
+ACTL6B_m100253076	ACTL6B	629	628	2063	1552
+ACTL6B_m100253081	ACTL6B	396	389	750	916
+ACTL6B_m100253086	ACTL6B	434	521	1882	2074
+ACTL6B_m100253168	ACTL6B	511	529	748	2164
+ACTL6B_m100253443	ACTL6B	758	723	2678	2516
+ACTL6B_m100253971	ACTL6B	329	258	361	1120
+ACTL6B_p100253037	ACTL6B	949	460	1018	2309
+ACTL6B_p100253066	ACTL6B	669	576	889	767
+ACTL6B_p100253094	ACTL6B	643	793	2197	1129
+ACTL6B_p100253446	ACTL6B	823	466	1720	826
+ACTL7A_m111624641	ACTL7A	1314	876	2510	3213
+ACTL7A_m111624669	ACTL7A	377	215	956	842
+ACTL7A_m111624684	ACTL7A	363	196	962	1151
+ACTL7A_m111624726	ACTL7A	276	171	661	450
+ACTL7A_m111624736	ACTL7A	594	467	578	763
+ACTL7A_p111624607	ACTL7A	236	403	885	1854
+ACTL7A_p111624631	ACTL7A	449	404	599	568
+ACTL7A_p111624686	ACTL7A	232	67	168	519
+ACTL7A_p111624691	ACTL7A	228	280	953	1363
+ACTL7A_p111624699	ACTL7A	826	437	1417	950
+ACTN1_m69392359	ACTN1	371	199	1423	1037
+ACTN1_m69392382	ACTN1	466	515	1342	2479
+ACTN1_m69445694	ACTN1	212	355	816	193
+ACTN1_m69445700	ACTN1	476	322	1643	1666
+ACTN1_m69445718	ACTN1	739	356	1746	1278
+ACTN1_m69445724	ACTN1	1001	742	2437	2097
+ACTN1_p69392370	ACTN1	1446	919	3111	3490
+ACTN1_p69445679	ACTN1	175	74	381	334
+ACTN1_p69445708	ACTN1	122	142	395	420
+ACTN1_p69445745	ACTN1	591	419	1213	1105
+ACTN4_m39138399	ACTN4	540	400	1210	1730
+ACTN4_m39138430	ACTN4	111	149	596	620
+ACTN4_m39138527	ACTN4	146	90	398	67
+ACTN4_p39138381	ACTN4	447	358	1075	1450
+ACTN4_p39138403	ACTN4	570	837	1744	2822
+ACTN4_p39138433	ACTN4	590	473	1627	1689
+ACTN4_p39138459	ACTN4	1072	1136	1897	2800
+ACTN4_p39138465	ACTN4	1160	610	1726	2233
+ACTN4_p39138476	ACTN4	306	268	1675	1709
+ACTN4_p39138482	ACTN4	927	566	2530	2890
+ACTR1A_m104248862	ACTR1A	719	1214	2213	2147
+ACTR1A_m104250350	ACTR1A	284	126	189	193
+ACTR1A_m104250365	ACTR1A	274	91	1128	1252
+ACTR1A_p104248833	ACTR1A	547	420	1032	1967
+ACTR1A_p104248866	ACTR1A	664	375	741	301
+ACTR1A_p104250290	ACTR1A	412	416	3242	1959
+ACTR1A_p104250304	ACTR1A	445	586	1731	2020
+ACTR1A_p104262351	ACTR1A	662	619	1218	4097
+ACTR1A_p104262374	ACTR1A	910	407	1189	1732
+ACTR1A_p104262383	ACTR1A	844	471	342	627
+ACTR3_m114684932	ACTR3	697	767	1401	693
+ACTR3_m114688941	ACTR3	781	589	1286	326
+ACTR3_p114674498	ACTR3	896	664	2125	1851
+ACTR3_p114684915	ACTR3	609	464	1110	998
+ACTR3_p114684941	ACTR3	648	616	1964	2548
+ACTR3_p114684946	ACTR3	524	309	1193	643
+ACTR3_p114684953	ACTR3	58	358	287	1091
+ACTR3_p114688931	ACTR3	491	433	927	1553
+ACTR3_p114691883	ACTR3	369	437	663	816
+ACTR3_p114691894	ACTR3	1477	1267	2229	2034
+ACTR5_m37377141	ACTR5	589	527	2529	2963
+ACTR5_m37377155	ACTR5	65	208	659	363
+ACTR5_m37377161	ACTR5	233	309	842	355
+ACTR5_m37377171	ACTR5	298	250	764	685
+ACTR5_m37377189	ACTR5	462	436	2502	1189
+ACTR5_p37377163	ACTR5	362	463	1571	789
+ACTR5_p37377178	ACTR5	258	374	1370	888
+ACTR5_p37377198	ACTR5	254	270	673	1140
+ACTR5_p37377204	ACTR5	198	172	570	543
+ACTR5_p37377211	ACTR5	695	416	755	492
+ACTR8_m53916047	ACTR8	1690	1323	3444	1592
+ACTR8_m53916057	ACTR8	675	566	1179	350
+ACTR8_m53916067	ACTR8	862	651	398	74
+ACTR8_m53916073	ACTR8	1021	741	1269	2580
+ACTR8_m53916081	ACTR8	1310	1157	309	411
+ACTR8_m53916091	ACTR8	239	440	361	1091
+ACTR8_m53916096	ACTR8	1170	567	565	388
+ACTR8_m53916103	ACTR8	615	814	2350	1844
+ACTR8_m53916111	ACTR8	443	609	913	1874
+ACTR8_m53916121	ACTR8	194	230	157	78
+ACTRT3_m169487192	ACTRT3	347	97	346	310
+ACTRT3_m169487204	ACTRT3	257	156	950	1253
+ACTRT3_m169487242	ACTRT3	1477	907	1672	2552
+ACTRT3_m169487247	ACTRT3	294	470	457	812
+ACTRT3_m169487252	ACTRT3	193	481	553	1045
+ACTRT3_m169487267	ACTRT3	432	381	1343	1621
+ACTRT3_m169487273	ACTRT3	549	406	282	1198
+ACTRT3_m169487289	ACTRT3	760	300	752	681
+ACTRT3_p169487206	ACTRT3	24	229	715	1043
+ACTRT3_p169487280	ACTRT3	1000	564	2005	1704
+ACVR1B_m52369170	ACVR1B	280	468	1538	2861
+ACVR1B_m52369187	ACVR1B	707	652	1605	1647
+ACVR1B_m52369192	ACVR1B	430	268	2364	748
+ACVR1B_m52369211	ACVR1B	1029	754	1684	2786
+ACVR1B_m52369226	ACVR1B	35	205	515	205
+ACVR1B_m52369237	ACVR1B	1002	865	1931	1920
+ACVR1B_p52369196	ACVR1B	276	160	275	415
+ACVR1B_p52369243	ACVR1B	471	422	963	783
+ACVR1B_p52369255	ACVR1B	114	94	70	263
+ACVR1B_p52369266	ACVR1B	796	679	2414	2199
+ACVR1C_m158401016	ACVR1C	305	258	723	1114
+ACVR1C_m158401030	ACVR1C	748	808	2126	3206
+ACVR1C_m158401075	ACVR1C	193	176	471	1063
+ACVR1C_m158401097	ACVR1C	654	444	1557	1665
+ACVR1C_m158401113	ACVR1C	224	185	486	717
+ACVR1C_m158443700	ACVR1C	675	359	1390	2446
+ACVR1C_m158443841	ACVR1C	323	290	1419	1520
+ACVR1C_p158443781	ACVR1C	335	259	1156	1715
+ACVR1C_p158443786	ACVR1C	959	517	2009	2015
+ACVR1C_p158443795	ACVR1C	1008	588	2106	2524
+ACVR1_m158637033	ACVR1	652	426	2567	2204
+ACVR1_m158637046	ACVR1	485	382	2055	1724
+ACVR1_m158637054	ACVR1	198	488	904	680
+ACVR1_m158637066	ACVR1	483	371	1070	1150
+ACVR1_m158655997	ACVR1	918	1304	2692	3010
+ACVR1_p158637019	ACVR1	455	605	1145	1331
+ACVR1_p158637035	ACVR1	1370	776	2676	3298
+ACVR1_p158637068	ACVR1	469	810	2288	2807
+ACVR1_p158655928	ACVR1	196	173	851	587
+ACVR1_p158655958	ACVR1	279	203	1070	569
+ACVR2A_m148602752	ACVR2A	955	561	1182	1126
+ACVR2A_m148602767	ACVR2A	1084	799	1782	3155
+ACVR2A_m148653941	ACVR2A	396	368	746	2145
+ACVR2A_m148653961	ACVR2A	587	243	1032	954
+ACVR2A_p148602720	ACVR2A	961	403	2354	3163
+ACVR2A_p148602754	ACVR2A	350	142	731	943
+ACVR2A_p148653859	ACVR2A	169	350	959	1370
+ACVR2A_p148653946	ACVR2A	648	263	1457	2080
+ACVR2A_p148653965	ACVR2A	390	95	190	583
+ACVR2A_p148653997	ACVR2A	1091	1020	2469	2845
+ACVR2B_m38495825	ACVR2B	1404	1332	3150	2677
+ACVR2B_m38518828	ACVR2B	275	617	2219	2134
+ACVR2B_m38518849	ACVR2B	440	415	1134	662
+ACVR2B_p38495805	ACVR2B	547	437	872	1040
+ACVR2B_p38495827	ACVR2B	789	618	1598	2756
+ACVR2B_p38518810	ACVR2B	780	728	2390	2354
+ACVR2B_p38518817	ACVR2B	861	991	2617	3970
+ACVR2B_p38518836	ACVR2B	997	438	1180	1663
+ACVR2B_p38518841	ACVR2B	400	279	1162	1254
+ACVR2B_p38518854	ACVR2B	1460	918	2715	3235
+ACVRL1_m52306276	ACVRL1	627	496	2249	2456
+ACVRL1_m52306307	ACVRL1	557	550	1651	1462
+ACVRL1_m52306881	ACVRL1	1133	621	2525	2059
+ACVRL1_m52306910	ACVRL1	868	640	2322	2264
+ACVRL1_m52306921	ACVRL1	504	296	2326	958
+ACVRL1_p52306245	ACVRL1	569	548	1736	2092
+ACVRL1_p52306281	ACVRL1	813	505	2675	2225
+ACVRL1_p52306287	ACVRL1	1148	859	2205	3686
+ACVRL1_p52306296	ACVRL1	906	633	1150	1272
+ACVRL1_p52306883	ACVRL1	1056	636	1842	2022
+ADAD1_m123301295	ADAD1	405	500	1518	1011
+ADAD1_m123301308	ADAD1	531	425	878	2224
+ADAD1_m123301332	ADAD1	711	630	1699	1668
+ADAD1_m123301345	ADAD1	350	264	1162	654
+ADAD1_m123301366	ADAD1	358	314	1423	1337
+ADAD1_p123301314	ADAD1	991	793	2078	2170
+ADAD1_p123301335	ADAD1	538	230	595	508
+ADAD1_p123301349	ADAD1	651	161	802	1162
+ADAD1_p123301358	ADAD1	1190	1074	3236	4172
+ADAD1_p123301373	ADAD1	628	471	1456	1346
+ADAM10_m58974490	ADAM10	417	394	676	702
+ADAM10_m59009777	ADAM10	367	575	1729	1785
+ADAM10_m59009866	ADAM10	415	353	538	1216
+ADAM10_m59009883	ADAM10	815	1060	2685	3758
+ADAM10_m59041689	ADAM10	61	56	79	309
+ADAM10_m59041696	ADAM10	340	258	649	592
+ADAM10_p58974401	ADAM10	659	487	936	448
+ADAM10_p58974481	ADAM10	911	649	2327	2141
+ADAM10_p59009761	ADAM10	246	134	293	508
+ADAM10_p59009767	ADAM10	603	423	1536	912
+ADAM12_m128018982	ADAM12	438	199	661	612
+ADAM12_m128019019	ADAM12	753	735	1714	1670
+ADAM12_m128019025	ADAM12	381	485	1516	1073
+ADAM12_m128076635	ADAM12	242	399	825	1111
+ADAM12_m128076658	ADAM12	523	432	2270	2731
+ADAM12_p128018991	ADAM12	35	39	132	389
+ADAM12_p128019039	ADAM12	1241	459	1049	1058
+ADAM12_p128076618	ADAM12	82	131	305	410
+ADAM12_p128076641	ADAM12	768	751	2339	3211
+ADAM12_p128076650	ADAM12	530	365	673	1328
+ADAMTS5_m28338537	ADAMTS5	668	722	1079	2252
+ADAMTS5_m28338697	ADAMTS5	727	422	859	1530
+ADAMTS5_m28338702	ADAMTS5	410	280	994	1053
+ADAMTS5_p28338524	ADAMTS5	614	586	1600	1039
+ADAMTS5_p28338585	ADAMTS5	662	529	853	1072
+ADAMTS5_p28338596	ADAMTS5	572	322	592	1002
+ADAMTS5_p28338607	ADAMTS5	758	530	2009	1206
+ADAMTS5_p28338612	ADAMTS5	78	166	278	479
+ADAMTS5_p28338620	ADAMTS5	272	118	566	822
+ADAMTS5_p28338667	ADAMTS5	759	520	1914	3378
+ADAP1_m975089	ADAP1	321	356	830	1158
+ADAP1_m975116	ADAP1	399	189	602	758
+ADAP1_m975132	ADAP1	651	530	1919	1445
+ADAP1_m994042	ADAP1	199	208	720	1240
+ADAP1_m994066	ADAP1	114	38	324	622
+ADAP1_m994071	ADAP1	781	405	416	603
+ADAP1_m994091	ADAP1	598	686	569	1671
+ADAP1_m994101	ADAP1	781	449	1441	1951
+ADAP1_m994106	ADAP1	300	372	1070	872
+ADAP1_p975103	ADAP1	619	400	837	2124
+ADARB1_m46591572	ADARB1	140	105	358	629
+ADARB1_m46595675	ADARB1	387	265	1117	697
+ADARB1_m46595697	ADARB1	485	319	952	1089
+ADARB1_m46595715	ADARB1	510	213	749	1177
+ADARB1_m46595721	ADARB1	156	414	1880	1598
+ADARB1_m46595779	ADARB1	453	98	304	253
+ADARB1_p46595645	ADARB1	738	566	2401	2617
+ADARB1_p46595700	ADARB1	503	515	1573	1321
+ADARB1_p46595705	ADARB1	1352	1069	2843	4330
+ADARB1_p46595724	ADARB1	234	73	485	397
+ADARB2_m1779246	ADARB2	1268	893	2792	2559
+ADARB2_m1779251	ADARB2	505	337	1496	1434
+ADARB2_m1779266	ADARB2	1067	1173	2870	3299
+ADARB2_m1779272	ADARB2	693	289	1077	1441
+ADARB2_m1779308	ADARB2	776	671	1395	1709
+ADARB2_m1779330	ADARB2	92	67	557	699
+ADARB2_m1779337	ADARB2	453	395	1564	1305
+ADARB2_p1421307	ADARB2	285	169	597	1128
+ADARB2_p1421336	ADARB2	382	306	1398	1015
+ADARB2_p1779233	ADARB2	301	129	627	1138
+ADAR_m154574098	ADAR	1070	579	1931	1523
+ADAR_m154574103	ADAR	90	75	441	1151
+ADAR_m154574108	ADAR	1085	615	2361	1748
+ADAR_m154574165	ADAR	458	292	865	1012
+ADAR_m154574219	ADAR	432	715	2566	1758
+ADAR_p154574043	ADAR	521	589	1702	1435
+ADAR_p154574114	ADAR	68	110	61	35
+ADAR_p154574121	ADAR	0	5	0	0
+ADAR_p154574126	ADAR	233	227	372	594
+ADAR_p154574157	ADAR	701	294	1072	1160
+ADCK1_m78285328	ADCK1	451	568	1746	2962
+ADCK1_m78285358	ADCK1	1053	1107	2964	4114
+ADCK1_m78285376	ADCK1	993	664	2055	2136
+ADCK1_m78285413	ADCK1	812	763	2571	3331
+ADCK1_p78285311	ADCK1	591	395	1142	1055
+ADCK1_p78285331	ADCK1	543	433	2344	3069
+ADCK1_p78285341	ADCK1	795	511	1394	1709
+ADCK1_p78285386	ADCK1	551	387	1076	1513
+ADCK1_p78285402	ADCK1	848	424	2063	2210
+ADCK1_p78285416	ADCK1	562	449	1550	3612
+ADCK2_m140373155	ADCK2	53	55	158	371
+ADCK2_m140373168	ADCK2	469	309	710	1295
+ADCK2_m140373177	ADCK2	396	453	1181	747
+ADCK2_m140373210	ADCK2	587	354	2377	1644
+ADCK2_m140373220	ADCK2	235	328	1346	846
+ADCK2_m140373231	ADCK2	894	647	1868	2104
+ADCK2_p140373122	ADCK2	394	525	1206	1142
+ADCK2_p140373137	ADCK2	132	30	193	44
+ADCK2_p140373158	ADCK2	570	537	1365	1700
+ADCK2_p140373194	ADCK2	854	572	2422	1834
+ADCK3_m227149096	ADCK3	184	234	688	919
+ADCK3_m227149144	ADCK3	179	95	300	405
+ADCK3_m227149153	ADCK3	844	1373	2964	3638
+ADCK3_m227149163	ADCK3	759	599	2130	3197
+ADCK3_p227149079	ADCK3	1573	613	2063	2888
+ADCK3_p227149104	ADCK3	1108	940	3375	3744
+ADCK3_p227149124	ADCK3	822	569	1637	1858
+ADCK3_p227149133	ADCK3	493	365	1114	1747
+ADCK3_p227149155	ADCK3	1548	1255	4648	5233
+ADCK3_p227149165	ADCK3	380	472	1686	2046
+ADCK4_m41220243	ADCK4	565	487	2139	1295
+ADCK4_m41220249	ADCK4	1008	1123	3240	3165
+ADCK4_m41220284	ADCK4	840	732	2152	3902
+ADCK4_m41220291	ADCK4	153	106	1110	142
+ADCK4_m41220465	ADCK4	553	476	1500	1747
+ADCK4_m41220474	ADCK4	1346	986	4215	4983
+ADCK4_m41220523	ADCK4	385	437	1392	779
+ADCK4_p41220276	ADCK4	463	301	873	1793
+ADCK4_p41220422	ADCK4	110	188	436	813
+ADCK4_p41220480	ADCK4	1717	1377	3413	2651
+ADCK5_m145603095	ADCK5	617	573	1345	2054
+ADCK5_m145603137	ADCK5	813	610	1046	1919
+ADCK5_m145603170	ADCK5	584	452	1694	958
+ADCK5_m145608301	ADCK5	715	396	2393	2309
+ADCK5_m145608343	ADCK5	637	445	2314	2374
+ADCK5_p145597774	ADCK5	392	305	1063	531
+ADCK5_p145603106	ADCK5	1009	755	3670	2825
+ADCK5_p145603142	ADCK5	871	833	2002	2685
+ADCK5_p145608305	ADCK5	256	349	597	165
+ADCK5_p145608311	ADCK5	409	418	1942	1575
+ADCY1_m45614206	ADCY1	122	176	649	351
+ADCY1_m45614243	ADCY1	688	682	769	1474
+ADCY1_m45614270	ADCY1	454	346	861	1526
+ADCY1_m45614323	ADCY1	483	514	1591	2080
+ADCY1_p45614127	ADCY1	1174	1279	2832	2521
+ADCY1_p45614255	ADCY1	307	465	1300	901
+ADCY1_p45614284	ADCY1	296	284	589	810
+ADCY1_p45614294	ADCY1	102	176	456	419
+ADCY1_p45614309	ADCY1	265	110	279	66
+ADCY1_p45614315	ADCY1	2	41	334	327
+ADD1_m2877698	ADD1	325	227	747	430
+ADD1_m2877722	ADD1	326	204	806	817
+ADD1_m2877771	ADD1	361	456	1293	1306
+ADD1_m2877776	ADD1	385	247	855	962
+ADD1_p2877627	ADD1	161	175	797	1406
+ADD1_p2877644	ADD1	558	574	1946	1334
+ADD1_p2877730	ADD1	132	14	378	366
+ADD1_p2877736	ADD1	751	456	1220	969
+ADD1_p2877743	ADD1	390	787	1155	1591
+ADD1_p2877761	ADD1	960	365	1696	1882
+ADD3_m111860427	ADD3	193	292	1082	1216
+ADD3_m111860445	ADD3	862	391	1646	934
+ADD3_m111860450	ADD3	1087	846	2617	3137
+ADD3_m111860456	ADD3	1010	495	2002	1201
+ADD3_m111860540	ADD3	794	741	2167	1575
+ADD3_p111860411	ADD3	404	470	829	1630
+ADD3_p111860500	ADD3	351	591	1798	1978
+ADD3_p111860505	ADD3	665	476	984	1023
+ADD3_p111860545	ADD3	940	681	1977	2029
+ADD3_p111860553	ADD3	1280	776	2512	1755
+ADH5_m100003154	ADH5	381	424	416	798
+ADH5_m100003254	ADH5	802	700	1376	1879
+ADH5_m100006267	ADH5	911	907	3313	3502
+ADH5_m100006354	ADH5	971	652	2604	2435
+ADH5_m100009841	ADH5	1322	1273	3324	3483
+ADH5_p100002504	ADH5	455	404	1225	1641
+ADH5_p100002510	ADH5	302	136	716	1270
+ADH5_p100002584	ADH5	1479	666	2178	2515
+ADH5_p100003219	ADH5	215	330	71	223
+ADH5_p100003224	ADH5	378	204	542	1124
+ADH7_m100349694	ADH7	552	581	1627	1566
+ADH7_m100350690	ADH7	116	403	581	668
+ADH7_m100350735	ADH7	553	374	1228	793
+ADH7_m100350762	ADH7	1263	889	2255	2111
+ADH7_p100349698	ADH7	740	477	1576	2712
+ADH7_p100349706	ADH7	316	222	272	956
+ADH7_p100349757	ADH7	412	324	814	1257
+ADH7_p100350692	ADH7	398	255	649	1596
+ADH7_p100350718	ADH7	117	181	363	114
+ADH7_p100350724	ADH7	233	217	712	560
+ADI1_m3517677	ADI1	282	275	359	706
+ADI1_m3523156	ADI1	523	407	1020	1658
+ADI1_m3523162	ADI1	403	400	575	1011
+ADI1_m3523239	ADI1	394	178	644	1113
+ADI1_m3523246	ADI1	545	375	1984	1698
+ADI1_m3523251	ADI1	1062	1025	3383	3536
+ADI1_p3517642	ADI1	178	225	644	1989
+ADI1_p3517660	ADI1	667	470	1496	1344
+ADI1_p3523164	ADI1	762	685	1012	1748
+ADI1_p3523171	ADI1	433	88	894	437
+ADIRF_m88728302	ADIRF	335	125	491	180
+ADIRF_m88728350	ADIRF	166	135	207	305
+ADIRF_m88729968	ADIRF	500	379	984	823
+ADIRF_p88728292	ADIRF	731	535	1745	1300
+ADIRF_p88728315	ADIRF	478	569	2047	1778
+ADIRF_p88728321	ADIRF	1121	428	1087	1063
+ADIRF_p88729942	ADIRF	647	487	962	1344
+ADIRF_p88729951	ADIRF	296	245	437	594
+ADIRF_p88729975	ADIRF	61	118	331	532
+ADIRF_p88729984	ADIRF	904	885	1780	2371
+ADK_m75960552	ADK	1002	1030	2002	2299
+ADK_m75960590	ADK	142	37	463	612
+ADK_m76153995	ADK	688	657	1035	1504
+ADK_m76154033	ADK	379	386	1387	1782
+ADK_p75960554	ADK	247	465	1168	611
+ADK_p76074446	ADK	1024	254	1036	1732
+ADK_p76074475	ADK	135	16	396	200
+ADK_p76074481	ADK	298	42	404	404
+ADK_p76153940	ADK	547	266	2118	2103
+ADK_p76154015	ADK	309	276	1421	1198
+ADNP2_m77891006	ADNP2	0	0	25	295
+ADNP2_p77875445	ADNP2	446	349	891	1167
+ADNP2_p77875475	ADNP2	169	60	454	806
+ADNP2_p77875482	ADNP2	382	220	761	1355
+ADNP2_p77875499	ADNP2	507	346	719	1609
+ADNP2_p77875511	ADNP2	880	734	1596	2475
+ADNP2_p77890985	ADNP2	528	721	1784	2201
+ADNP2_p77891013	ADNP2	505	342	833	1052
+ADNP2_p77891042	ADNP2	162	131	662	956
+ADNP2_p77891053	ADNP2	241	181	536	504
+ADNP_m49511043	ADNP	278	295	767	1226
+ADNP_m49518579	ADNP	1228	808	2714	3762
+ADNP_m49518587	ADNP	2053	1488	2908	6245
+ADNP_m49520451	ADNP	1122	441	1226	2328
+ADNP_m49520507	ADNP	653	787	2266	4913
+ADNP_p49510837	ADNP	337	170	534	970
+ADNP_p49510899	ADNP	1015	750	3309	3466
+ADNP_p49510949	ADNP	292	501	900	1980
+ADNP_p49511011	ADNP	291	323	1039	1572
+ADNP_p49520498	ADNP	470	432	1649	1736
+ADPRHL2_m36554512	ADPRHL2	337	456	1255	1717
+ADPRHL2_m36554557	ADPRHL2	1087	589	1204	1823
+ADPRHL2_m36554563	ADPRHL2	823	237	1247	1066
+ADPRHL2_m36554576	ADPRHL2	748	628	2075	2502
+ADPRHL2_m36554620	ADPRHL2	239	168	388	130
+ADPRHL2_p36554501	ADPRHL2	407	391	1071	1610
+ADPRHL2_p36554520	ADPRHL2	750	594	2176	1591
+ADPRHL2_p36554568	ADPRHL2	335	447	881	1510
+ADPRHL2_p36554580	ADPRHL2	578	527	1481	1293
+ADPRHL2_p36554606	ADPRHL2	175	138	84	355
+ADRA1A_m26722399	ADRA1A	110	130	597	857
+ADRA1A_m26722428	ADRA1A	0	0	108	322
+ADRA1A_m26722434	ADRA1A	716	734	1561	1900
+ADRA1A_m26722473	ADRA1A	552	327	1172	1094
+ADRA1A_p26722329	ADRA1A	1069	820	2273	2416
+ADRA1A_p26722406	ADRA1A	227	314	1002	1190
+ADRA1A_p26722412	ADRA1A	689	554	1599	1443
+ADRA1A_p26722419	ADRA1A	386	286	793	647
+ADRA1A_p26722438	ADRA1A	744	526	1152	1461
+ADRA1A_p26722465	ADRA1A	378	280	1518	394
+ADRA1B_m159343921	ADRA1B	46	138	311	193
+ADRA1B_m159343926	ADRA1B	358	462	1834	1238
+ADRA1B_m159343934	ADRA1B	509	676	1632	1313
+ADRA1B_m159343996	ADRA1B	509	295	1458	1358
+ADRA1B_m159344001	ADRA1B	224	174	1398	1182
+ADRA1B_m159344006	ADRA1B	341	125	345	760
+ADRA1B_m159344028	ADRA1B	731	297	1475	1304
+ADRA1B_p159343905	ADRA1B	279	165	70	585
+ADRA1B_p159343912	ADRA1B	782	825	1522	1899
+ADRA1B_p159343940	ADRA1B	731	705	2012	2117
+ADRB1_m115803922	ADRB1	157	126	616	620
+ADRB1_m115803930	ADRB1	300	124	716	632
+ADRB1_m115803938	ADRB1	588	662	1530	2374
+ADRB1_m115803996	ADRB1	439	290	1119	700
+ADRB1_m115804005	ADRB1	916	892	1255	1108
+ADRB1_m115804012	ADRB1	1474	1094	1733	1233
+ADRB1_m115804041	ADRB1	282	646	958	1752
+ADRB1_m115804047	ADRB1	434	307	611	563
+ADRB1_p115803878	ADRB1	298	647	2027	1533
+ADRB1_p115803909	ADRB1	393	357	1120	1694
+ADRB2_m148206406	ADRB2	564	485	1573	1390
+ADRB2_m148206447	ADRB2	562	463	1395	1143
+ADRB2_p148206408	ADRB2	731	425	2455	1785
+ADRB2_p148206418	ADRB2	302	232	732	632
+ADRB2_p148206432	ADRB2	318	630	939	939
+ADRB2_p148206450	ADRB2	414	494	1514	932
+ADRB2_p148206455	ADRB2	3368	2002	6329	7676
+ADRB2_p148206462	ADRB2	920	529	1751	2621
+ADRB2_p148206467	ADRB2	518	521	1030	1397
+ADRB2_p148206474	ADRB2	101	249	664	626
+ADRB3_m37823829	ADRB3	214	158	1095	887
+ADRB3_m37823842	ADRB3	97	0	0	242
+ADRB3_m37823867	ADRB3	171	134	398	767
+ADRB3_m37823894	ADRB3	827	1050	3426	3963
+ADRB3_p37823813	ADRB3	862	396	837	792
+ADRB3_p37823900	ADRB3	123	135	443	359
+ADRB3_p37823908	ADRB3	321	225	1162	1331
+ADRB3_p37823913	ADRB3	309	215	833	744
+ADRB3_p37823952	ADRB3	839	821	2409	2329
+ADRB3_p37823958	ADRB3	1511	550	2208	2013
+ADRBK1_m67034181	ADRBK1	253	494	3797	2735
+ADRBK1_m67034219	ADRBK1	755	641	1538	1746
+ADRBK1_m67034242	ADRBK1	995	681	2437	2655
+ADRBK1_m67034255	ADRBK1	399	556	1179	2293
+ADRBK1_p67034160	ADRBK1	693	404	1697	2000
+ADRBK1_p67034166	ADRBK1	864	683	2522	2840
+ADRBK1_p67034172	ADRBK1	899	1011	2344	2162
+ADRBK1_p67034193	ADRBK1	618	469	2599	2217
+ADRBK1_p67034199	ADRBK1	628	427	2345	2230
+ADRBK1_p67034261	ADRBK1	463	357	505	1103
+ADRBK2_m25961078	ADRBK2	215	236	789	926
+ADRBK2_m25961092	ADRBK2	1140	544	2086	3062
+ADRBK2_m25961108	ADRBK2	702	221	1434	1217
+ADRBK2_m26000349	ADRBK2	179	217	917	455
+ADRBK2_m26000370	ADRBK2	484	243	906	740
+ADRBK2_m26057580	ADRBK2	415	459	1917	1560
+ADRBK2_p25960997	ADRBK2	892	242	1961	1439
+ADRBK2_p25961098	ADRBK2	1384	463	1717	1821
+ADRBK2_p26040592	ADRBK2	290	342	410	1075
+ADRBK2_p26057601	ADRBK2	991	947	2744	3634
+ADRM1_m60878634	ADRM1	279	370	690	623
+ADRM1_m60878651	ADRM1	501	373	891	915
+ADRM1_m60878679	ADRM1	1078	907	2696	2532
+ADRM1_p60878615	ADRM1	325	474	280	783
+ADRM1_p60878642	ADRM1	64	70	112	789
+ADRM1_p60878671	ADRM1	286	76	488	546
+ADRM1_p60878682	ADRM1	688	402	1256	1923
+ADRM1_p60878687	ADRM1	138	180	680	90
+ADRM1_p60878704	ADRM1	186	378	576	565
+ADRM1_p60878730	ADRM1	423	358	622	1086
+AEBP1_m44144289	AEBP1	1334	1186	2582	3782
+AEBP1_m44144302	AEBP1	402	478	786	1505
+AEBP1_m44144319	AEBP1	675	505	775	1012
+AEBP1_m44144326	AEBP1	782	647	2562	2633
+AEBP1_m44144338	AEBP1	395	198	1099	513
+AEBP1_m44144355	AEBP1	357	1109	1602	1473
+AEBP1_p44144293	AEBP1	613	649	1571	2284
+AEBP1_p44144306	AEBP1	661	532	1463	891
+AEBP1_p44144347	AEBP1	707	560	1087	1375
+AEBP1_p44144359	AEBP1	524	496	916	1847
+AEBP2_m19615484	AEBP2	71	218	511	716
+AEBP2_m19615553	AEBP2	933	301	1372	1392
+AEBP2_m19615572	AEBP2	696	264	1156	1354
+AEBP2_m19615578	AEBP2	237	378	1301	1044
+AEBP2_p19615440	AEBP2	701	615	1392	1934
+AEBP2_p19615465	AEBP2	175	242	252	143
+AEBP2_p19615492	AEBP2	497	218	640	1437
+AEBP2_p19615498	AEBP2	637	511	990	1441
+AEBP2_p19615544	AEBP2	507	423	1167	1352
+AEBP2_p19615557	AEBP2	808	484	2226	1828
+AEN_m89169460	AEN	1093	875	2182	1989
+AEN_m89169478	AEN	940	749	2392	572
+AEN_m89169484	AEN	903	509	1547	1436
+AEN_m89169489	AEN	64	0	278	214
+AEN_m89169495	AEN	451	335	1322	685
+AEN_m89169500	AEN	462	320	1175	861
+AEN_m89169507	AEN	386	415	528	1381
+AEN_m89169544	AEN	365	387	800	689
+AEN_p89169516	AEN	983	602	2722	1738
+AEN_p89169534	AEN	701	600	2356	790
+AES_m3056311	AES	515	347	1414	2030
+AES_m3056337	AES	563	690	1812	2204
+AES_m3057678	AES	591	446	1183	1776
+AES_m3057717	AES	680	578	1487	2171
+AES_m3061159	AES	385	371	1586	1251
+AES_m3061215	AES	356	510	1912	1476
+AES_p3056318	AES	734	371	1264	1467
+AES_p3061179	AES	183	175	179	695
+AES_p3061186	AES	162	150	269	806
+AES_p3061195	AES	367	200	1323	339
+AFAP1L2_m116092987	AFAP1L2	598	262	1008	1705
+AFAP1L2_m116093045	AFAP1L2	482	477	1193	1342
+AFAP1L2_m116100394	AFAP1L2	453	557	1363	906
+AFAP1L2_m116100466	AFAP1L2	311	244	775	934
+AFAP1L2_p116092995	AFAP1L2	941	487	1418	1489
+AFAP1L2_p116100376	AFAP1L2	150	289	593	940
+AFAP1L2_p116100409	AFAP1L2	915	638	3685	2371
+AFAP1L2_p116100418	AFAP1L2	264	204	1090	1162
+AFAP1L2_p116100433	AFAP1L2	227	167	549	378
+AFAP1L2_p116164194	AFAP1L2	402	206	961	965
+AFF1_m87967374	AFF1	175	108	270	664
+AFF1_m87967382	AFF1	253	196	229	920
+AFF1_m87967432	AFF1	118	339	234	376
+AFF1_m87967920	AFF1	511	918	1733	1106
+AFF1_m87967978	AFF1	374	206	595	1219
+AFF1_p87967338	AFF1	422	361	1309	2027
+AFF1_p87967353	AFF1	1215	822	1522	2879
+AFF1_p87967869	AFF1	489	702	1911	1568
+AFF1_p87967890	AFF1	561	567	835	2301
+AFF1_p87967926	AFF1	539	580	2082	1397
+AFF2_m147891407	AFF2	242	211	431	1053
+AFF2_m147891412	AFF2	527	282	1329	1264
+AFF2_m147891420	AFF2	344	69	183	320
+AFF2_m147924509	AFF2	83	46	50	201
+AFF2_m147924918	AFF2	584	640	1261	4264
+AFF2_m147924923	AFF2	409	185	588	318
+AFF2_m147967463	AFF2	411	513	1474	1929
+AFF2_m147967470	AFF2	607	720	1417	2796
+AFF2_p147891422	AFF2	83	353	593	530
+AFF2_p147967406	AFF2	710	592	2176	2168
+AFF3_m100623802	AFF3	426	108	207	324
+AFF3_m100623914	AFF3	165	122	178	388
+AFF3_m100625275	AFF3	355	134	962	902
+AFF3_m100625319	AFF3	505	440	1515	1741
+AFF3_m100625326	AFF3	318	254	825	1101
+AFF3_m100625363	AFF3	789	429	801	533
+AFF3_p100623773	AFF3	1294	1028	2494	1487
+AFF3_p100623814	AFF3	646	605	968	2285
+AFF3_p100623867	AFF3	637	316	1053	1051
+AFF3_p100623873	AFF3	217	247	690	368
+AFF4_m132272813	AFF4	649	422	1198	2157
+AFF4_m132272826	AFF4	786	1234	3211	3711
+AFF4_m132272833	AFF4	929	1084	1731	2189
+AFF4_m132272841	AFF4	164	359	448	1402
+AFF4_m132272866	AFF4	816	826	2232	2605
+AFF4_p132272747	AFF4	359	64	115	579
+AFF4_p132272762	AFF4	382	267	1139	1059
+AFF4_p132272771	AFF4	375	781	1818	2643
+AFF4_p132272844	AFF4	408	530	1920	2421
+AFF4_p132272853	AFF4	515	381	1400	1598
+AFMID_m76183481	AFMID	477	551	978	1588
+AFMID_m76183493	AFMID	304	108	349	365
+AFMID_m76187074	AFMID	611	496	803	543
+AFMID_m76187079	AFMID	269	265	866	440
+AFMID_p76183445	AFMID	620	482	1487	1754
+AFMID_p76183450	AFMID	543	878	962	1761
+AFMID_p76183465	AFMID	108	337	504	414
+AFMID_p76183473	AFMID	261	241	1321	746
+AFMID_p76187060	AFMID	309	636	1105	1222
+AFMID_p76187082	AFMID	774	579	1274	1548
+AFTPH_m64778617	AFTPH	283	165	385	65
+AFTPH_m64778646	AFTPH	680	529	1310	2559
+AFTPH_m64778724	AFTPH	34	72	168	117
+AFTPH_m64778773	AFTPH	41	91	367	335
+AFTPH_m64778841	AFTPH	508	257	1696	967
+AFTPH_m64778905	AFTPH	315	199	981	1187
+AFTPH_p64778649	AFTPH	1173	845	2103	2885
+AFTPH_p64778713	AFTPH	1178	849	2447	1747
+AFTPH_p64778754	AFTPH	578	485	1208	1349
+AFTPH_p64778890	AFTPH	422	298	581	1149
+AGAP2_m58128438	AGAP2	556	505	1856	1455
+AGAP2_m58128444	AGAP2	1673	906	3114	3687
+AGAP2_m58128454	AGAP2	825	649	1423	1588
+AGAP2_m58129187	AGAP2	624	433	1675	1954
+AGAP2_m58129192	AGAP2	541	409	1625	662
+AGAP2_p58128423	AGAP2	287	288	635	725
+AGAP2_p58129143	AGAP2	515	282	1256	456
+AGAP2_p58129148	AGAP2	519	670	986	1154
+AGAP2_p58129153	AGAP2	208	115	403	489
+AGAP2_p58129171	AGAP2	346	511	2100	2182
+AGAP3_m150784003	AGAP3	944	631	1925	1942
+AGAP3_p150783818	AGAP3	264	287	1479	1311
+AGAP3_p150783825	AGAP3	222	358	1523	1076
+AGAP3_p150783857	AGAP3	904	585	2134	2790
+AGAP3_p150783866	AGAP3	240	132	492	750
+AGAP3_p150783903	AGAP3	472	382	1243	1565
+AGAP3_p150783915	AGAP3	570	405	594	1737
+AGAP3_p150783972	AGAP3	249	208	529	1305
+AGAP3_p150784007	AGAP3	481	358	1327	2561
+AGAP3_p150784015	AGAP3	331	379	1244	1284
+AGBL5_m27275887	AGBL5	436	339	487	337
+AGBL5_m27275950	AGBL5	241	158	324	482
+AGBL5_m27275975	AGBL5	530	525	1234	1582
+AGBL5_m27276001	AGBL5	425	312	588	976
+AGBL5_m27276006	AGBL5	771	785	1013	1977
+AGBL5_p27275820	AGBL5	288	232	356	746
+AGBL5_p27275854	AGBL5	202	467	776	2155
+AGBL5_p27275870	AGBL5	466	308	625	990
+AGBL5_p27275876	AGBL5	300	355	689	799
+AGBL5_p27275898	AGBL5	754	1109	1690	2331
+AGFG1_m228337138	AGFG1	714	564	2746	1557
+AGFG1_m228337178	AGFG1	374	575	1247	1529
+AGFG1_m228337201	AGFG1	635	496	1007	1334
+AGFG1_m228337208	AGFG1	457	440	879	1340
+AGFG1_m228337217	AGFG1	229	348	573	750
+AGFG1_m228337248	AGFG1	669	378	1071	587
+AGFG1_m228337276	AGFG1	1621	1273	2485	2620
+AGFG1_p228337142	AGFG1	0	24	0	137
+AGFG1_p228337168	AGFG1	454	376	780	1240
+AGFG1_p228337221	AGFG1	306	241	1131	1122
+AGL_m100327112	AGL	777	539	1842	2115
+AGL_m100327128	AGL	83	140	505	640
+AGL_m100327135	AGL	151	67	664	807
+AGL_m100327186	AGL	94	90	635	232
+AGL_m100327263	AGL	516	261	650	368
+AGL_p100327060	AGL	497	260	523	675
+AGL_p100327074	AGL	413	555	1032	899
+AGL_p100327114	AGL	32	83	380	54
+AGL_p100327219	AGL	134	162	66	137
+AGL_p100327246	AGL	315	143	320	626
+AGPAT3_m45379563	AGPAT3	179	141	81	288
+AGPAT3_m45379570	AGPAT3	87	130	303	281
+AGPAT3_m45379578	AGPAT3	69	88	328	395
+AGPAT3_m45379590	AGPAT3	819	918	2207	1744
+AGPAT3_m45379606	AGPAT3	256	166	527	358
+AGPAT3_p45379552	AGPAT3	710	651	2228	2263
+AGPAT3_p45379592	AGPAT3	734	254	476	439
+AGPAT3_p45379613	AGPAT3	407	172	740	481
+AGPAT3_p45379618	AGPAT3	40	396	699	1463
+AGPAT3_p45379648	AGPAT3	701	370	934	719
+AGPAT5_m6566202	AGPAT5	195	321	307	227
+AGPAT5_m6566212	AGPAT5	1668	1381	3410	4278
+AGPAT5_m6566223	AGPAT5	782	1145	2701	2379
+AGPAT5_m6566233	AGPAT5	2271	2181	4502	4135
+AGPAT5_m6566240	AGPAT5	546	898	1383	1661
+AGPAT5_m6566254	AGPAT5	520	268	586	1373
+AGPAT5_m6566307	AGPAT5	196	141	369	188
+AGPAT5_p6566182	AGPAT5	329	233	790	1033
+AGPAT5_p6566257	AGPAT5	941	738	1815	1921
+AGPAT5_p6566262	AGPAT5	474	274	1506	1191
+AGTPBP1_m88296213	AGTPBP1	531	492	2269	2580
+AGTPBP1_m88296222	AGTPBP1	1138	509	1909	2637
+AGTPBP1_m88307605	AGTPBP1	495	251	796	824
+AGTPBP1_m88307687	AGTPBP1	1353	700	2269	2760
+AGTPBP1_m88307696	AGTPBP1	0	204	694	669
+AGTPBP1_p88296203	AGTPBP1	298	192	727	1188
+AGTPBP1_p88307644	AGTPBP1	206	189	435	608
+AGTPBP1_p88307675	AGTPBP1	800	646	1441	2138
+AGTPBP1_p88307700	AGTPBP1	107	67	64	1054
+AGTPBP1_p88307705	AGTPBP1	446	253	716	903
+AHCTF1_m247067252	AHCTF1	134	170	672	60
+AHCTF1_m247068844	AHCTF1	753	595	2763	1411
+AHCTF1_m247068867	AHCTF1	509	275	380	835
+AHCTF1_m247068886	AHCTF1	745	497	1328	638
+AHCTF1_m247068945	AHCTF1	461	178	973	1432
+AHCTF1_m247070906	AHCTF1	734	906	553	339
+AHCTF1_m247070995	AHCTF1	978	617	508	282
+AHCTF1_m247094617	AHCTF1	575	372	858	1120
+AHCTF1_p247076572	AHCTF1	375	417	1749	1088
+AHCTF1_p247079429	AHCTF1	409	507	1166	1318
+AHCY_m32883210	AHCY	205	370	362	240
+AHCY_m32883247	AHCY	777	619	179	176
+AHCY_m32883267	AHCY	537	378	1147	1029
+AHCY_m32883301	AHCY	267	232	530	374
+AHCY_m32883330	AHCY	1367	1259	3863	3387
+AHCY_p32883227	AHCY	729	229	1023	611
+AHCY_p32883238	AHCY	42	123	974	791
+AHCY_p32883253	AHCY	443	495	376	33
+AHCY_p32883304	AHCY	1106	794	3402	3472
+AHCY_p32883309	AHCY	717	497	169	185
+AHNAK2_m105423801	AHNAK2	827	932	2364	2698
+AHNAK2_m105423809	AHNAK2	275	265	776	1124
+AHNAK2_m105423822	AHNAK2	215	414	1125	1162
+AHNAK2_m105423829	AHNAK2	502	495	890	704
+AHNAK2_m105423836	AHNAK2	200	460	2170	1886
+AHNAK2_m105444536	AHNAK2	260	256	1122	1064
+AHNAK2_m105444541	AHNAK2	518	374	1342	1589
+AHNAK2_m105444555	AHNAK2	343	156	257	1290
+AHNAK2_p105423957	AHNAK2	460	311	497	1143
+AHNAK2_p105423983	AHNAK2	247	219	1549	972
+AHNAK_m62303488	AHNAK	272	284	1238	1124
+AHNAK_m62303507	AHNAK	79	133	464	34
+AHNAK_m62303523	AHNAK	122	168	238	534
+AHNAK_m62303528	AHNAK	181	449	1074	1467
+AHNAK_m62303548	AHNAK	591	552	1143	573
+AHNAK_m62303560	AHNAK	479	540	1629	2630
+AHNAK_p62303470	AHNAK	258	412	1397	1743
+AHNAK_p62303477	AHNAK	446	282	879	831
+AHNAK_p62303510	AHNAK	322	254	948	862
+AHNAK_p62303551	AHNAK	35	23	186	55
+AHRR_m344006	AHRR	235	92	752	841
+AHRR_m344069	AHRR	283	210	337	610
+AHRR_m353878	AHRR	1	47	0	110
+AHRR_m353892	AHRR	239	85	458	728
+AHRR_m353898	AHRR	382	96	316	720
+AHRR_p344008	AHRR	171	125	2480	2626
+AHRR_p344030	AHRR	501	503	1767	803
+AHRR_p344036	AHRR	230	342	600	114
+AHRR_p344042	AHRR	837	296	1327	1652
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out.count.R	Wed Apr 04 11:03:29 2018 -0400
@@ -0,0 +1,5 @@
+Sweave("output_countsummary.Rnw");
+library(tools);
+
+texi2dvi("output_countsummary.tex",pdf=TRUE);
+
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out.count.Rnw	Wed Apr 04 11:03:29 2018 -0400
@@ -0,0 +1,237 @@
+% This is a template file for Sweave used in MAGeCK
+% Author: Wei Li, Shirley Liu lab
+% Do not modify lines beginning with "#__".
+\documentclass{article}
+
+\usepackage{amsmath}
+\usepackage{amscd}
+\usepackage[tableposition=top]{caption}
+\usepackage{ifthen}
+\usepackage{fullpage}
+\usepackage[utf8]{inputenc}
+% \usepackage{longtable}
+
+\begin{document}
+\setkeys{Gin}{width=0.9\textwidth}
+
+\title{MAGeCK Count Report}
+\author{Wei Li}
+
+\maketitle
+
+
+\tableofcontents
+
+\section{Summary}
+
+%Function definition
+<<label=funcdef,include=FALSE,echo=FALSE>>=
+genreporttable<-function(filelist,labellist,reads,mappedreads){
+  xtb=data.frame(Label=labellist,Reads=reads,MappedReads=mappedreads,MappedPercentage=mappedreads/reads);
+  colnames(xtb)=c("Label","Reads","Mapped","Percentage");
+  return (xtb);
+}
+genreporttable2<-function(filelist,labellist,sgrnas,zerocounts,gini){
+  xtb=data.frame(Label=labellist,TotalsgRNAs=sgrnas,ZeroCounts=zerocounts,GiniIndex=gini);
+  colnames(xtb)=c("Label","TotalsgRNA","ZeroCounts","GiniIndex");
+  return (xtb);
+}
+genreporttable3<-function(filelist,labellist){
+  xtb=data.frame(File=filelist,Label=labellist);
+  colnames(xtb)=c("File","Label");
+  return (xtb);
+}
+
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F");
+
+
+
+genboxplot<-function(filename,...){
+  #slmed=read.table(filename,header=T)
+  slmed=read.table(filename,header=T)
+  slmat=as.matrix(slmed[,c(-1,-2)])
+  slmat_log=log2(slmat+1)
+
+  boxplot(slmat_log,pch='.',las=2,ylab='log2(read counts)',cex.axis=0.8,...)
+}
+
+
+genhistplot<-function(filename,isfile=T,...){
+  if(isfile){
+    slmed=read.table(filename,header=T)
+  }else{
+    slmed=filename;
+  }
+  tabsmat=as.matrix(log2(slmed[,c(-1,-2)]+1))
+  colnames(tabsmat)=colnames(slmed)[c(-1,-2)]
+  samplecol=colors[((1:ncol(tabsmat)) %% length(colors)) ]
+  if(ncol(tabsmat)>=1){
+    histlist=lapply(1:ncol(tabsmat),function(X){ return (hist(tabsmat[,X],plot=F,breaks=40)) })
+    xrange=range(unlist(lapply(histlist,function(X){X$mids})))
+    yrange=range(unlist(lapply(histlist,function(X){X$counts})))
+    hst1=histlist[[1]]
+    plot(hst1$mids,hst1$counts,type='b',pch=20,xlim=c(0,xrange[2]*1.2),ylim=c(0,yrange[2]*1.2),xlab='log2(counts)',ylab='Frequency',main='Distribution of read counts',col = samplecol[1], ... )
+  }
+  if(ncol(tabsmat)>=2){
+    for(i in 2:ncol(tabsmat)){
+      hstn=histlist[[i]]
+      lines(hstn$mids,hstn$counts,type='b',pch=20,col=samplecol[i])
+    }
+  }
+  legend('topright',colnames(tabsmat),pch=20,lwd=1,col=samplecol)
+}
+
+
+
+genclustering<-function(filename,...){
+  #slmed=read.table(filename,header=T)
+  slmed=read.table(filename,header=T)
+  slmat=as.matrix(slmed[,c(-1,-2)])
+  slmat_log=log2(slmat+1)
+
+  result=tryCatch({
+    library(gplots);
+    heatmap.2(cor(slmat_log),trace = 'none',density.info = 'none',cexRow = 0.8,cexCol = 0.8,offsetRow = -0.2,offsetCol = -0.2)
+  }, error=function(e){
+    heatmap(cor(slmat_log),scale='none',cexRow = 0.8,cexCol = 0.8,cex.axis=0.8,...)
+  });
+}
+
+ctfit_tx=0;
+
+
+panel.plot<-function(x,y,textnames=names(x),...){
+  par(new=TRUE)
+  m<-cbind(x,y)
+  plot(m,pch=20,xlim = range(x)*1.1,ylim=range(y)*1.1,...)
+  text(x,y,textnames,...)
+}
+
+
+genpcaplot<-function(filename,...){
+  #slmed=read.table(filename,header=T)
+  slmed=read.table(filename,header=T)
+  slmat=as.matrix(slmed[,c(-1,-2)])
+  slmat_log=log2(slmat+1)
+  ctfit_tx<<-prcomp(t(slmat_log),center=TRUE)
+
+  # par(mfrow=c(2,1));
+  samplecol=colors[((1:ncol(slmat)) %% length(colors)) ]
+  # first 2 PCA
+  #plot(ctfit_tx$x[,1],ctfit_tx$x[,2],xlab='PC1',ylab='PC2',main='First 2 PCs',col=samplecol,xlim=1.1*range(ctfit_tx$x[,1]),ylim=1.1*range(ctfit_tx$x[,2]));
+  #text(ctfit_tx$x[,1],ctfit_tx$x[,2],rownames(ctfit_tx$x),col=samplecol);
+  # par(mfrow=c(1,1));
+  if(length(samplecol)>2){
+    pairs(ctfit_tx$x[,1:3],panel=panel.plot,textnames=rownames(ctfit_tx$x),main='First 3 principle components',col=samplecol)
+  }else{
+    if(length(samplecol)>1){
+      pairs(ctfit_tx$x[,1:2],panel=panel.plot,textnames=rownames(ctfit_tx$x),main='First 2 principle components',col=samplecol)
+   }
+  }
+
+
+}
+
+genpcavar<-function(){
+  # % variance
+  varpca=ctfit_tx$sdev^2
+  varpca=varpca/sum(varpca)*100;
+  if(length(varpca)>10){
+    varpca=varpca[1:10];
+  }
+  plot(varpca,type='b',lwd=2,pch=20,xlab='PCs',ylab='% Variance explained');
+}
+
+@
+
+%__FILE_SUMMARY__
+
+The statistics of comparisons are listed in Table 1 and Table 2.
+The corresponding fastq files in each row are listed in Table 3.
+
+<<label=tab1,echo=FALSE,results=tex>>=
+library(xtable)
+filelist=c("input_0.gz");
+labellist=c("test1_fastq_gz");
+reads=c(2500);
+mappedreads=c(1453);
+totalsgrnas=c(2550);
+zerocounts=c(1276);
+giniindex=c(0.5266899931488773);
+
+cptable=genreporttable(filelist,labellist,reads,mappedreads);
+print(xtable(cptable, caption = "Summary of comparisons", label = "tab:one",
+    digits = c(0, 0, 0, 0,2),
+    align=c('c',  'c','c',  'c', 'c'),
+    table.placement = "tbp",
+    caption.placement = "top"))
+@
+
+<<label=tab2,echo=FALSE,results=tex>>=
+library(xtable)
+cptable=genreporttable2(filelist,labellist,totalsgrnas,zerocounts,giniindex);
+print(xtable(cptable, caption = "Summary of comparisons", label = "tab:two",
+    digits = c(0, 0,0, 0,2),
+    align=c('c',  'c','c',  'c', 'c'),
+    table.placement = "tbp",
+    caption.placement = "top"))
+@
+
+
+
+
+
+<<label=tab3,echo=FALSE,results=tex>>=
+library(xtable)
+cptable=genreporttable3(filelist,labellist);
+print(xtable(cptable, caption = "Summary of samples", label = "tab:three",
+    digits = c(0,0, 0),
+    align=c('c', 'p{9cm}', 'c'),
+    table.placement = "tbp",
+    caption.placement = "top"))
+@
+
+
+
+
+The meanings of the columns are as follows.
+
+\begin{itemize}
+\item \textbf{Row}: The row number in the table;
+\item \textbf{File}: The filename of fastq file;
+\item \textbf{Label}: Assigned label;
+\item \textbf{Reads}: The total read count in the fastq file;
+\item \textbf{Mapped}: Reads that can be mapped to gRNA library;
+\item \textbf{Percentage}: The percentage of mapped reads;
+\item \textbf{TotalsgRNAs}: The number of sgRNAs in the library;
+\item \textbf{ZeroCounts}: The number of sgRNA with 0 read counts;
+\item \textbf{GiniIndex}: The Gini Index of the read count distribution. Gini index can be used to measure the evenness of the read counts, and a smaller value means a more even distribution of the read counts.
+\end{itemize}
+
+
+
+\newpage\section{Normalized read count distribution of all samples}
+The following figure shows the distribution of median-normalized read counts in all samples.
+
+
+<<fig=TRUE,echo=FALSE,width=4.5,height=4.5>>=
+genboxplot("output.count_normalized.txt");
+@
+
+The following figure shows the histogram of median-normalized read counts in all samples.
+
+
+<<fig=TRUE,echo=FALSE,width=4.5,height=4.5>>=
+genhistplot("output.count_normalized.txt");
+@
+
+%__INDIVIDUAL_PAGE__
+
+
+
+\end{document}
+
--- a/test-data/out.count.bam.txt	Sat Feb 17 10:41:26 2018 -0500
+++ b/test-data/out.count.bam.txt	Wed Apr 04 11:03:29 2018 -0400
@@ -1,4 +1,4 @@
-sgRNA	Gene	test1.bam
+sgRNA	Gene	test1_bam
 s_10007	CCNA1	0
 s_10008	CCNA1	0
 s_10027	CCNC	0
--- a/test-data/out.count.fastq.txt	Sat Feb 17 10:41:26 2018 -0500
+++ b/test-data/out.count.fastq.txt	Wed Apr 04 11:03:29 2018 -0400
@@ -1,4 +1,4 @@
-sgRNA	Gene	test1.fastq.gz
+sgRNA	Gene	test1_fastq_gz
 s_47512	RNF111	1
 s_24835	HCFC1R1	1
 s_14784	CYP4B1	4
--- a/test-data/out.count.log.txt	Sat Feb 17 10:41:26 2018 -0500
+++ b/test-data/out.count.log.txt	Wed Apr 04 11:03:29 2018 -0400
@@ -1,46 +1,43 @@
-INFO  @ Wed, 14 Feb 2018 01:52:58: Parameters: /home/maria/miniconda3/envs/mulled-v1-0142cfe25b04f0c1d6899e250fb2f311b2d84778259938a0f6bd1d2ee743fa71/bin/mageck count -l /tmp/tmpqZ84Xc/files/000/dataset_7.dat --fastq input.gz -n output --pdf-report --keep-tmp --unmapped-to-file --norm-method median --sgrna-len 20
-INFO  @ Wed, 14 Feb 2018 01:52:58: Welcome to MAGeCK v0.5.7. Command: count
-INFO  @ Wed, 14 Feb 2018 01:52:58: Loading 2550 predefined sgRNAs.
-WARNING @ Wed, 14 Feb 2018 01:52:58: There are 0 sgRNAs with duplicated sequences.
-INFO  @ Wed, 14 Feb 2018 01:52:58: Parsing FASTQ file input.gz...
-INFO  @ Wed, 14 Feb 2018 01:52:58: Determining the trim-5 length of FASTQ file input.gz...
-INFO  @ Wed, 14 Feb 2018 01:52:58: Possible gRNA lengths:20
-INFO  @ Wed, 14 Feb 2018 01:52:58: Processing 0M reads ...
-INFO  @ Wed, 14 Feb 2018 01:52:58: Read length:30
-INFO  @ Wed, 14 Feb 2018 01:52:58: Total tested reads: 2500, mapped: 1453(0.5812)
-INFO  @ Wed, 14 Feb 2018 01:52:58: --trim-5 test data: (trim_length reads fraction)
-INFO  @ Wed, 14 Feb 2018 01:52:58: 0	1453	1.0
-INFO  @ Wed, 14 Feb 2018 01:52:58: Auto determination of trim5 results: 0
-INFO  @ Wed, 14 Feb 2018 01:52:58: Possible gRNA lengths:20
-INFO  @ Wed, 14 Feb 2018 01:52:58: Processing 0M reads ..
-INFO  @ Wed, 14 Feb 2018 01:52:58: Total: 2500.
-INFO  @ Wed, 14 Feb 2018 01:52:58: Mapped: 1453.
-DEBUG @ Wed, 14 Feb 2018 01:52:58: Initial (total) size factor: 1.0
-DEBUG @ Wed, 14 Feb 2018 01:52:58: Median factor: 2.0
-INFO  @ Wed, 14 Feb 2018 01:52:58: Final size factor: 2.0
-INFO  @ Wed, 14 Feb 2018 01:52:58: Summary of file input.gz:
-INFO  @ Wed, 14 Feb 2018 01:52:58: label	sample1
-INFO  @ Wed, 14 Feb 2018 01:52:58: reads	2500
-INFO  @ Wed, 14 Feb 2018 01:52:58: mappedreads	1453
-INFO  @ Wed, 14 Feb 2018 01:52:58: totalsgrnas	2550
-INFO  @ Wed, 14 Feb 2018 01:52:58: zerosgrnas	1276
-INFO  @ Wed, 14 Feb 2018 01:52:58: giniindex	0.5266899931488773
-INFO  @ Wed, 14 Feb 2018 01:52:58: Loading Rnw template file: /home/maria/miniconda3/envs/mulled-v1-0142cfe25b04f0c1d6899e250fb2f311b2d84778259938a0f6bd1d2ee743fa71/lib/python3.6/site-packages/mageck/fastq_template.Rnw.
-DEBUG @ Wed, 14 Feb 2018 01:52:58: Setting up the visualization module...
-INFO  @ Wed, 14 Feb 2018 01:52:58: Running command: cd ./; Rscript output_countsummary.R
-INFO  @ Wed, 14 Feb 2018 01:52:58: Command message:
-INFO  @ Wed, 14 Feb 2018 01:52:58:   Writing to file output_countsummary.tex
-INFO  @ Wed, 14 Feb 2018 01:52:58:   Processing code chunks with options ...
-INFO  @ Wed, 14 Feb 2018 01:52:58:    1 : keep.source term verbatim (label = funcdef, output_countsummary.Rnw:28)
-INFO  @ Wed, 14 Feb 2018 01:52:58:    2 : keep.source term tex (label = tab1, output_countsummary.Rnw:156)
-INFO  @ Wed, 14 Feb 2018 01:52:58:    3 : keep.source term tex (label = tab2, output_countsummary.Rnw:174)
-INFO  @ Wed, 14 Feb 2018 01:52:58:    4 : keep.source term tex (label = tab3, output_countsummary.Rnw:188)
-INFO  @ Wed, 14 Feb 2018 01:52:58:    5 : keep.source term verbatim pdf  (output_countsummary.Rnw:221)
-INFO  @ Wed, 14 Feb 2018 01:52:58:    6 : keep.source term verbatim pdf  (output_countsummary.Rnw:228)
-INFO  @ Wed, 14 Feb 2018 01:52:58:
-INFO  @ Wed, 14 Feb 2018 01:52:58:   You can now run (pdf)latex on ‘output_countsummary.tex’
-INFO  @ Wed, 14 Feb 2018 01:52:58:   Error in texi2dvi("output_countsummary.tex", pdf = TRUE) :
-INFO  @ Wed, 14 Feb 2018 01:52:58:     pdflatex is not available
-INFO  @ Wed, 14 Feb 2018 01:52:58:   Execution halted
-INFO  @ Wed, 14 Feb 2018 01:52:58:
-INFO  @ Wed, 14 Feb 2018 01:52:58: End command message.
+INFO  @ Sun, 25 Mar 2018 15:51:06: Parameters: /Users/doylemaria/miniconda3/envs/mulled-v1-5ed9647f14e9d3e99564d31bed2eb19cd32ee8b9da66a89bea59b64a8983b1d6/bin/mageck count -l /private/var/folders/zn/m_qvr9zd7tq0wdtsbq255f8xypj_zg/T/tmp0EKzNL/files/000/dataset_2.dat --fastq input_0.gz --sample-label test1_fastq_gz -n output --pdf-report --keep-tmp --unmapped-to-file
+INFO  @ Sun, 25 Mar 2018 15:51:06: Welcome to MAGeCK v0.5.7. Command: count
+INFO  @ Sun, 25 Mar 2018 15:51:06: Loading 2550 predefined sgRNAs.
+WARNING @ Sun, 25 Mar 2018 15:51:06: There are 0 sgRNAs with duplicated sequences.
+INFO  @ Sun, 25 Mar 2018 15:51:06: Parsing FASTQ file input_0.gz...
+INFO  @ Sun, 25 Mar 2018 15:51:06: Determining the trim-5 length of FASTQ file input_0.gz...
+INFO  @ Sun, 25 Mar 2018 15:51:06: Possible gRNA lengths:20
+INFO  @ Sun, 25 Mar 2018 15:51:06: Processing 0M reads ...
+INFO  @ Sun, 25 Mar 2018 15:51:06: Read length:30
+INFO  @ Sun, 25 Mar 2018 15:51:06: Total tested reads: 2500, mapped: 1453(0.5812)
+INFO  @ Sun, 25 Mar 2018 15:51:06: --trim-5 test data: (trim_length reads fraction)
+INFO  @ Sun, 25 Mar 2018 15:51:06: 0	1453	1.0
+INFO  @ Sun, 25 Mar 2018 15:51:06: Auto determination of trim5 results: 0
+INFO  @ Sun, 25 Mar 2018 15:51:06: Possible gRNA lengths:20
+INFO  @ Sun, 25 Mar 2018 15:51:06: Processing 0M reads ..
+INFO  @ Sun, 25 Mar 2018 15:51:06: Total: 2500.
+INFO  @ Sun, 25 Mar 2018 15:51:06: Mapped: 1453.
+DEBUG @ Sun, 25 Mar 2018 15:51:06: Initial (total) size factor: 1.0
+DEBUG @ Sun, 25 Mar 2018 15:51:06: Median factor: 2.0
+INFO  @ Sun, 25 Mar 2018 15:51:06: Final size factor: 2.0
+INFO  @ Sun, 25 Mar 2018 15:51:06: Summary of file input_0.gz:
+INFO  @ Sun, 25 Mar 2018 15:51:06: label	test1_fastq_gz
+INFO  @ Sun, 25 Mar 2018 15:51:06: reads	2500
+INFO  @ Sun, 25 Mar 2018 15:51:06: mappedreads	1453
+INFO  @ Sun, 25 Mar 2018 15:51:06: totalsgrnas	2550
+INFO  @ Sun, 25 Mar 2018 15:51:06: zerosgrnas	1276
+INFO  @ Sun, 25 Mar 2018 15:51:06: giniindex	0.5266899931488773
+INFO  @ Sun, 25 Mar 2018 15:51:06: Loading Rnw template file: /Users/doylemaria/miniconda3/envs/mulled-v1-5ed9647f14e9d3e99564d31bed2eb19cd32ee8b9da66a89bea59b64a8983b1d6/lib/python3.6/site-packages/mageck/fastq_template.Rnw.
+DEBUG @ Sun, 25 Mar 2018 15:51:06: Setting up the visualization module...
+INFO  @ Sun, 25 Mar 2018 15:51:06: Running command: cd ./; Rscript output_countsummary.R
+INFO  @ Sun, 25 Mar 2018 15:51:11: Command message:
+INFO  @ Sun, 25 Mar 2018 15:51:11:   Writing to file output_countsummary.tex
+INFO  @ Sun, 25 Mar 2018 15:51:11:   Processing code chunks with options ...
+INFO  @ Sun, 25 Mar 2018 15:51:11:    1 : keep.source term verbatim (label = funcdef, output_countsummary.Rnw:28)
+INFO  @ Sun, 25 Mar 2018 15:51:11:    2 : keep.source term tex (label = tab1, output_countsummary.Rnw:156)
+INFO  @ Sun, 25 Mar 2018 15:51:11:    3 : keep.source term tex (label = tab2, output_countsummary.Rnw:174)
+INFO  @ Sun, 25 Mar 2018 15:51:11:    4 : keep.source term tex (label = tab3, output_countsummary.Rnw:188)
+INFO  @ Sun, 25 Mar 2018 15:51:11:    5 : keep.source term verbatim pdf  (output_countsummary.Rnw:221)
+INFO  @ Sun, 25 Mar 2018 15:51:11:    6 : keep.source term verbatim pdf  (output_countsummary.Rnw:228)
+INFO  @ Sun, 25 Mar 2018 15:51:11:
+INFO  @ Sun, 25 Mar 2018 15:51:11:   You can now run (pdf)latex on ‘output_countsummary.tex’
+INFO  @ Sun, 25 Mar 2018 15:51:11:
+INFO  @ Sun, 25 Mar 2018 15:51:11: End command message.
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out.count.txt	Wed Apr 04 11:03:29 2018 -0400
@@ -0,0 +1,2551 @@
+sgRNA	Gene	test1_fastq_gz
+s_47512	RNF111	1
+s_24835	HCFC1R1	1
+s_14784	CYP4B1	4
+s_51146	SLC18A1	1
+s_58960	TRIM5	1
+s_48256	RPRD2	1
+s_30297	KRTAP5-5	1
+s_14555	CYB5B	1
+s_39959	PAAF1	1
+s_45293	PUF60	1
+s_49358	SCN8A	1
+s_64995	ZYG11A	1
+s_4029	ASTE1	1
+s_45554	R3HDML	1
+s_34264	MMRN1	1
+s_37459	NOL6	1
+s_23990	GPX7	1
+s_20268	FANCC	1
+s_14157	CTLA4	1
+s_36773	NEURL4	18
+s_18804	ETFB	1
+s_782	ACSS1	1
+s_18272	ENPP2	1
+s_46620	RCN1	1
+s_55436	TAS2R3	1
+s_57947	TMPRSS2	1
+s_6438	C14orf159	1
+s_33846	MGST2	1
+s_16328	DNAH6	1
+s_17875	EIF4G1	1
+s_2305	ANAPC11	1
+s_2500	ANKRD2	1
+s_82	AARSD1	1
+s_55329	TAL1	1
+s_57926	TMPRSS11E	8
+s_38414	NUP98	4
+s_50044	SERPINF1	1
+s_9257	CASR	1
+s_63396	ZNF182	1
+s_56478	THBS3	1
+s_17191	DYRK1A	1
+s_11988	CIR1	1
+s_43313	PPARD	1
+s_44681	PSMA4	1
+s_10387	CD320	1
+s_64869	ZPBP	1
+s_54385	STK17B	1
+s_25423	HIST1H4D	1
+s_54172	ST8SIA4	9
+s_1161	ADCY10	1
+s_29184	KIAA0913	1
+s_42977	POLD3	1
+s_49449	SCUBE1	1
+s_24181	GRM4	1
+s_52507	SMARCA5	1
+s_28674	KCNJ10	1
+s_61074	VAMP2	4
+s_3954	ASIC2	1
+s_2385	ANK1	1
+s_18397	EPDR1	1
+s_18377	EPB41L4B	1
+s_34580	MRAP2	1
+s_48676	RUFY3	10
+s_691	ACP1	1
+s_30460	LAMP2	1
+s_42637	PLRG1	1
+s_12695	CNOT6	1
+s_33316	MECOM	2
+s_35081	MSRB2	1
+s_58512	TPD52L2	1
+s_19912	FAM22F	1
+s_45517	QSOX2	1
+s_56705	TINAG	1
+s_10946	CDKL5	1
+s_57473	TMEM211	2
+s_57657	TMEM44	1
+s_43200	POT1	1
+s_19436	FAM135A	1
+s_184	ABCB9	1
+s_30171	KRT84	1
+s_44758	PSMC3IP	1
+s_48313	RPS3	1
+s_58142	TNFSF12	6
+s_59718	TTLL6	7
+s_9725	CCDC43	1
+s_5135	BCKDHA	1
+s_36539	NDUFC2	1
+s_27251	IL27RA	1
+s_48939	SAMD10	1
+s_27343	IL5RA	1
+s_28386	KANK2	1
+s_27610	INSRR	1
+s_2769	AOC3	2
+s_58632	TRA2B	12
+s_6674	C16orf86	1
+s_22902	GJD4	1
+s_48278	RPS15A	1
+s_61998	WIPF2	1
+s_4937	BAIAP3	2
+s_54471	STOML1	2
+s_19157	FABP12	1
+s_5434	BIN1	2
+s_42042	PIP5K1A	1
+s_7794	C3orf18	1
+s_54846	SVIL	1
+s_62273	XPA	1
+s_45859	RACGAP1	1
+s_53626	SPOCK3	1
+s_43295	PPAP2C	7
+s_11788	CHRDL1	2
+s_50636	SHQ1	1
+s_16705	DPF1	1
+s_39741	OTOF	1
+s_27505	INHBE	1
+s_707	ACPL2	1
+s_15418	DDX3Y	6
+s_56018	TEAD4	1
+s_44367	PRR12	1
+s_25875	HOXB5	1
+s_49360	SCN9A	1
+s_16244	DMPK	1
+s_3909	ASCC2	1
+s_55088	SYT6	1
+s_54311	STAU1	1
+s_53890	SRP72	1
+s_11035	CDX1	1
+s_18178	EMR3	2
+s_16084	DLD	1
+s_47207	RHOBTB1	1
+s_40267	PARK2	6
+s_43104	POLR3B	1
+s_2200	AMDHD2	1
+s_12738	CNRIP1	1
+s_17842	EIF4A3	1
+s_57950	TMPRSS3	1
+s_62146	WRN	1
+s_11055	CEACAM1	1
+s_54580	STX2	1
+s_29277	KIAA1407	1
+s_33428	MEF2A	1
+s_59797	TUBB	1
+s_18113	EME1	1
+s_29839	KLHL8	1
+s_18058	ELP2	1
+s_49497	SDCBP2	3
+s_16874	DRP2	1
+s_13572	CREBL2	1
+s_20540	FBXO30	1
+s_64380	ZNF646	1
+s_50366	SH2B1	1
+s_2548	ANKRD33B	1
+s_41183	PDXP	1
+s_16315	DNAH12	1
+s_19996	FAM49B	1
+s_30751	LDLRAD3	1
+s_36960	NGEF	1
+s_39015	OR2A2	1
+s_26302	HSPB2	1
+s_64297	ZNF611	5
+s_730	ACSBG1	1
+s_50271	SFXN4	1
+s_8592	CA6	2
+s_13683	CRMP1	1
+s_51103	SLC16A7	1
+s_63785	ZNF384	1
+s_16339	DNAH9	1
+s_55936	TCTEX1D1	1
+s_14497	CXorf40A	1
+s_1123	ADAT1	1
+s_41304	PERP	1
+s_18719	ESAM	1
+s_35118	MSX2	1
+s_30128	KRT6A	1
+s_402	ABTB1	1
+s_32578	MAP1LC3A	1
+s_45063	PTMA	1
+s_43551	PPP1R14D	1
+s_2538	ANKRD32	1
+s_40384	PAX1	1
+s_29076	KIAA0101	1
+s_40482	PCDH10	1
+s_2348	ANGPT2	1
+s_59756	TTYH3	1
+s_34330	MOB4	1
+s_49331	SCN2B	1
+s_54905	SYDE1	1
+s_39101	OR2T1	1
+s_36623	NEDD4L	1
+s_40500	PCDH15	2
+s_10660	CDC42SE2	1
+s_30867	LGALS13	1
+s_24322	GSTK1	2
+s_59167	TRPC1	1
+s_57440	TMEM201	1
+s_50539	SHC1	1
+s_37087	NIT1	1
+s_56345	TGFB2	1
+s_55388	TARM1	1
+s_1224	ADD2	1
+s_5256	BCOR	2
+s_51731	SLC35B3	1
+s_12987	COL6A6	1
+s_56745	TJP3	1
+s_19340	FAM120AOS	1
+s_53904	SRPR	1
+s_1588	AGXT	1
+s_46157	RASA3	1
+s_19166	FABP3	7
+s_22330	GATM	1
+s_10731	CDH13	1
+s_2329	ANAPC5	1
+s_46045	RANGAP1	1
+s_54814	SUV39H2	1
+s_56169	TEX14	1
+s_3433	ARHGEF26	1
+s_48032	RP4-811H24.6	1
+s_51930	SLC41A3	1
+s_63893	ZNF433	1
+s_46996	RGCC	1
+s_13863	CSF3R	1
+s_26337	HSPH1	1
+s_12983	COL6A3	1
+s_1376	ADSS	1
+s_45449	PYHIN1	1
+s_49629	SEC22C	1
+s_20204	FAM86A	1
+s_24920	HDAC9	1
+s_14961	DAPK1	1
+s_23900	GPR98	2
+s_14485	CXorf27	1
+s_61808	WDR66	1
+s_55855	TCF7	1
+s_44652	PSG8	1
+s_46608	RCCD1	1
+s_61175	VCAM1	1
+s_27453	INCA1	1
+s_28987	KDM4C	1
+s_20613	FBXO7	1
+s_7715	C2orf70	3
+s_3902	ASB9	1
+s_64098	ZNF534	1
+s_31108	LIN7B	1
+s_3383	ARHGEF1	1
+s_7626	C2orf43	1
+s_52247	SLC8A1	1
+s_54498	STOX1	1
+s_12160	CLDN17	1
+s_16224	DMD	1
+s_41715	PHLDB2	1
+s_12197	CLDN7	1
+s_51239	SLC22A16	1
+s_41286	PEPD	1
+s_2367	ANGPTL4	1
+s_59289	TSC22D4	1
+s_22437	GCFC2	1
+s_24343	GSTO2	1
+s_32783	MAPKAPK5	1
+s_37032	NINJ1	1
+s_49065	SASH3	1
+s_60466	UGT1A1	1
+s_26043	HPSE2	2
+s_21199	FLNA	1
+s_41054	PDGFRA	1
+s_1820	AKNA	1
+s_19548	FAM166A	1
+s_43967	PRDX5	1
+s_51905	SLC39A8	1
+s_22723	GGT5	5
+s_13242	COX6C	1
+s_27668	IP6K1	1
+s_64491	ZNF692	1
+s_61982	WHSC1L1	2
+s_48495	RSAD1	1
+s_34351	MOCS3	1
+s_12069	CLCA1	3
+s_22023	GABRR1	1
+s_12812	COASY	2
+s_40068	PAIP1	1
+s_11513	CGREF1	2
+s_32119	LY6K	1
+s_60743	UQCR11	1
+s_56354	TGFBR1	1
+s_3062	APOL2	1
+s_20525	FBXO25	1
+s_55591	TBC1D7	1
+s_14987	DARS2	1
+s_63195	ZMAT2	1
+s_41936	PIK3C2G	1
+s_56092	TEP1	1
+s_61284	VIT	1
+s_10035	CCND2	1
+s_43744	PPP6R3	2
+s_48110	RPL10L	1
+s_39381	OR5H15	1
+s_6827	C17orf90	2
+s_8795	CADPS	1
+s_55301	TAF9	1
+s_25756	HNRNPM	1
+s_61177	VCAN	1
+s_22932	GLB1	1
+s_55751	TCEA2	1
+s_39419	OR5T3	1
+s_33669	MEX3A	1
+s_42714	PLXNC1	1
+s_23239	GNAT1	1
+s_4546	ATPAF1	1
+s_64432	ZNF671	1
+s_31346	LOXHD1	1
+s_46353	RBFOX2	1
+s_8848	CALHM2	1
+s_27039	IL12RB1	1
+s_62824	ZCCHC9	1
+s_7498	C20orf96	1
+s_43406	PPIE	1
+s_54925	SYN1	1
+s_27284	IL31RA	1
+s_63774	ZNF37A	1
+s_43643	PPP1R8	1
+s_63149	ZIC2	1
+s_26251	HSP90AB1	1
+s_46773	RELL2	1
+s_64868	ZP4	1
+s_626	ACLY	1
+s_40694	PCED1A	1
+s_15888	DHTKD1	1
+s_53641	SPP1	1
+s_21822	FXR1	1
+s_53660	SPR	1
+s_29906	KLKB1	1
+s_1901	ALAS2	1
+s_45130	PTPN2	1
+s_43535	PPP1R13B	2
+s_15855	DHRS12	1
+s_13602	CRH	1
+s_51848	SLC39A1	1
+s_61205	VDR	1
+s_18989	EXOC7	1
+s_22294	GATA1	2
+s_34584	MRAS	1
+s_33140	MCFD2	1
+s_34546	MPST	1
+s_27208	IL21R	1
+s_14576	CYB5R4	1
+s_43745	PPP6R3	1
+s_41675	PHF8	1
+s_41243	PEBP4	2
+s_42685	PLXNA1	1
+s_41585	PHB2	1
+s_47989	RP1L1	1
+s_42300	PLA2G6	1
+s_53387	SPATA6L	1
+s_15423	DDX4	1
+s_64039	ZNF506	5
+s_22276	GAS6	1
+s_15373	DDX19B	1
+s_4322	ATP2B2	1
+s_25787	HOMER1	1
+s_10739	CDH16	1
+s_51702	SLC34A3	1
+s_20623	FBXO9	2
+s_13244	COX6C	1
+s_35367	MTX2	1
+s_5681	BPIFB6	1
+s_57337	TMEM176A	1
+s_43464	PPM1F	1
+s_20530	FBXO28	1
+s_55958	TDGF1	1
+s_4516	ATP7B	1
+s_19128	F8	1
+s_40084	PAK1IP1	1
+s_29430	KIF20B	1
+s_14773	CYP46A1	1
+s_19102	F2R	1
+s_29306	KIAA1524	2
+s_11438	CETN3	1
+s_49647	SEC24D	1
+s_35891	NAA11	1
+s_10770	CDH23	2
+s_44838	PSMG2	1
+s_22687	GGCT	1
+s_14266	CTSW	1
+s_38451	NXF3	1
+s_60012	TYRP1	1
+s_13190	COTL1	1
+s_4721	AZI2	1
+s_28800	KCNMB3	1
+s_23136	GM2A	1
+s_31806	LRRC71	1
+s_11862	CHRNG	2
+s_52893	SNX12	1
+s_31960	LSM5	1
+s_3273	ARHGAP22	1
+s_22140	GALNT2	1
+s_36663	NEK1	1
+s_45974	RALB	1
+s_48582	RTCA	1
+s_27173	IL1RL1	1
+s_49800	SEMA6D	1
+s_18249	ENOPH1	1
+s_31609	LRRC10B	1
+s_6450	C14orf176	1
+s_42314	PLAC1L	1
+s_7822	C3orf27	1
+s_43695	PPP2R5C	1
+s_8939	CAMKV	1
+s_58681	TRAF7	1
+s_12850	COG6	1
+s_20936	FGF3	1
+s_10862	CDK17	1
+s_60046	UAP1	1
+s_42295	PLA2G5	1
+s_52045	SLC4A9	1
+s_18532	EPS8L3	1
+s_15737	DFNB31	1
+s_12691	CNOT4	1
+s_27651	INTS7	1
+s_52454	SLX4	1
+s_5507	BMF	1
+s_57583	TMEM25	1
+s_36267	NCK2	1
+s_15361	DDX17	1
+s_24303	GSS	1
+s_11095	CEBPB	2
+s_59318	TSG101	1
+s_35897	NAA16	1
+s_11714	CHMP3	1
+s_7217	C1orf186	1
+s_14282	CTU1	1
+s_53137	SOX15	1
+s_30977	LHX3	1
+s_825	ACTL6A	1
+s_33214	MCOLN3	1
+s_57706	TMEM55B	1
+s_41619	PHF12	1
+s_13595	CREM	1
+s_30523	LARP4	1
+s_6229	C11orf68	1
+s_17880	EIF4G2	1
+s_36676	NEK3	1
+s_23667	GPR123	1
+s_1296	ADORA1	1
+s_18235	ENHO	1
+s_20589	FBXO45	1
+s_31341	LOX	1
+s_20983	FGFR2	1
+s_44192	PRLR	1
+s_62014	WIPI2	1
+s_2585	ANKRD45	1
+s_14161	CTLA4	1
+s_63079	ZFYVE1	1
+s_7088	C1orf106	1
+s_10461	CD55	1
+s_24803	HBM	1
+s_52929	SNX21	1
+s_40041	PAFAH2	1
+s_17056	DUSP15	1
+s_61656	WDR12	1
+s_28830	KCNQ3	2
+s_44745	PSMB9	1
+s_16151	DLGAP5	1
+s_17799	EIF2S3	1
+s_49444	SCTR	1
+s_37203	NLGN3	1
+s_63798	ZNF385D	1
+s_42282	PLA2G4D	1
+s_27383	ILF3	1
+s_40974	PDE4DIP	1
+s_55037	SYT1	1
+s_52560	SMC6	1
+s_56910	TM9SF2	1
+s_64839	ZNHIT6	2
+s_20818	FES	1
+s_16789	DPY19L3	1
+s_46072	RAP2A	1
+s_24369	GTDC1	1
+s_5332	BEST3	1
+s_15793	DGKG	2
+s_13197	COX11	1
+s_1613	AHCYL1	1
+s_62445	YLPM1	1
+s_5441	BIN3	1
+s_20572	FBXO41	1
+s_26507	IBSP	1
+s_17166	DYNC2H1	1
+s_37694	NPNT	1
+s_62561	ZBP1	1
+s_28074	ITGB3BP	1
+s_13046	COMMD4	1
+s_4936	BAIAP3	1
+s_16345	DNAI1	2
+s_60141	UBE2D4	1
+s_34569	MPZL3	1
+s_35839	MYRIP	1
+s_42840	PNN	1
+s_64147	ZNF558	1
+s_21759	FUCA2	1
+s_62347	XYLB	1
+s_41049	PDGFD	1
+s_19760	FAM198B	1
+s_4944	BAMBI	1
+s_59471	TSSC1	1
+s_60224	UBE2T	1
+s_62753	ZC3H6	1
+s_29129	KIAA0355	1
+s_43266	PPA2	1
+s_48165	RPL31	1
+s_25918	HOXC8	1
+s_61309	VMO1	1
+s_29649	KLF5	1
+s_3093	APP	1
+s_59201	TRPM2	2
+s_31154	LIPH	1
+s_43571	PPP1R17	1
+s_58112	TNFRSF25	1
+s_22767	GHRL	1
+s_59817	TUBB6	1
+s_63192	ZMAT1	1
+s_7306	C1orf49	1
+s_37585	NOX5	1
+s_57817	TMEM87B	1
+s_3667	ARNTL2	1
+s_14264	CTSS	1
+s_61283	VIT	1
+s_35482	MXD3	2
+s_54197	STAC2	1
+s_54806	SUSD5	1
+s_22238	GAPT	1
+s_62113	WNT8A	1
+s_54543	STRN4	1
+s_33235	MDC1	1
+s_63489	ZNF224	1
+s_37914	NRG1	1
+s_36452	NDUFA3	1
+s_12262	CLEC3B	1
+s_25	AAAS	1
+s_50339	SGPP2	1
+s_30706	LDB1	1
+s_49357	SCN8A	1
+s_33618	METTL21D	1
+s_4402	ATP5O	1
+s_55017	SYNRG	1
+s_51299	SLC23A3	1
+s_34572	MR1	2
+s_49259	SCGB3A1	1
+s_17794	EIF2S1	1
+s_47977	RP11-744I24.1	1
+s_32701	MAP7	1
+s_32432	MAGI3	1
+s_36564	NDUFS6	1
+s_11527	CHAC1	1
+s_56181	TEX22	1
+s_714	ACPT	1
+s_51144	SLC18A1	1
+s_57122	TMEM117	1
+s_28872	KCTD1	1
+s_63600	ZNF28	1
+s_57369	TMEM182	1
+s_60388	UCK1	1
+s_47188	RHEB	1
+s_15237	DCTD	1
+s_42694	PLXNA4	1
+s_19680	FAM187B	1
+s_35378	MUC1	1
+s_38682	OGG1	1
+s_1085	ADAMTS9	1
+s_40910	PDE1A	1
+s_27956	ISOC2	1
+s_27821	IRAK1	1
+s_16210	DMBT1	1
+s_63398	ZNF184	1
+s_18679	ERMP1	1
+s_9161	CASC1	2
+s_45196	PTPRF	1
+s_23002	GLIS2	1
+s_17310	EBP	1
+s_54797	SUSD3	1
+s_1528	AGPAT4	1
+s_7045	C1QTNF6	1
+s_22952	GLCE	1
+s_7105	C1orf111	1
+s_36537	NDUFC1	1
+s_15359	DDX11	1
+s_32881	MARK3	1
+s_27486	INHA	1
+s_2399	ANK2	1
+s_60825	USP10	1
+s_20838	FEZ2	1
+s_43974	PREB	1
+s_16482	DNAJC5G	1
+s_26334	HSPG2	1
+s_46175	RASD1	1
+s_26764	IFT20	1
+s_14739	CYP2J2	1
+s_11386	CERS2	1
+s_5964	BTN1A1	1
+s_16810	DPYSL3	1
+s_16136	DLGAP2	1
+s_13401	CPPED1	1
+s_22359	GBGT1	1
+s_49575	SDSL	1
+s_62067	WNT16	1
+s_61863	WDR83OS	1
+s_44742	PSMB8	2
+s_31855	LRRFIP2	1
+s_528	ACADM	1
+s_13073	COPA	1
+s_32741	MAPK3	1
+s_38779	OPA3	1
+s_34827	MRPS17	1
+s_16969	DTX1	1
+s_56448	THAP4	1
+s_906	ACVR2A	1
+s_45078	PTP4A2	1
+s_23628	GPR101	1
+s_58510	TPD52L1	1
+s_561	ACAT2	1
+s_52492	SMAP2	1
+s_24039	GRB2	1
+s_46264	RASSF4	1
+s_39609	ORMDL3	1
+s_47343	RIMS4	1
+s_56575	THUMPD1	1
+s_3261	ARHGAP18	1
+s_8148	C6orf165	1
+s_17030	DUSP10	1
+s_56155	TEX101	1
+s_21191	FLI1	1
+s_50732	SIK1	1
+s_2914	APCDD1	1
+s_30717	LDB3	1
+s_4702	AXIN1	2
+s_21360	FNIP2	1
+s_54350	STEAP4	1
+s_57227	TMEM14A	2
+s_58177	TNIK	1
+s_7465	C20orf26	2
+s_17327	ECE2	1
+s_51639	SLC30A10	1
+s_4352	ATP5A1	1
+s_18616	ERCC8	1
+s_44043	PRIMA1	1
+s_36712	NELL2	1
+s_61348	VPS16	1
+s_2680	ANO4	1
+s_30437	LAMB2	1
+s_33742	MFSD12	1
+s_58796	TRHR	1
+s_52365	SLCO5A1	1
+s_41281	PEMT	1
+s_23427	GON4L	1
+s_13427	CPSF3L	1
+s_40193	PAPD7	1
+s_21543	FPGT	2
+s_16722	DPH2	1
+s_40078	PAIP2B	1
+s_60284	UBL5	1
+s_59936	TXNDC15	1
+s_31898	LRRTM4	1
+s_44833	PSMG1	2
+s_19552	FAM166B	1
+s_19478	FAM151A	1
+s_30185	KRTAP1-3	1
+s_61742	WDR45	1
+s_7252	C1orf212	1
+s_29507	KIF9	1
+s_2786	AP1G1	1
+s_21222	FLT1	1
+s_38408	NUP93	1
+s_60875	USP25	1
+s_39905	P2RX5	1
+s_54470	STOML1	1
+s_19064	EYA4	1
+s_41060	PDGFRL	1
+s_32049	LUC7L	1
+s_11837	CHRNA9	1
+s_64166	ZNF563	1
+s_11211	CENPK	1
+s_63097	ZFYVE21	1
+s_24757	HAUS4	1
+s_4190	ATG7	1
+s_48629	RTN4	1
+s_22880	GJB3	1
+s_44427	PRR7	1
+s_464	AC069154.2	1
+s_22093	GALC	1
+s_55367	TAPBP	1
+s_56672	TIMM22	1
+s_22286	GAS7	1
+s_45341	PVR	1
+s_34498	MPL	1
+s_60077	UBA7	3
+s_44215	PRMT5	1
+s_15576	DEFB125	1
+s_44098	PRKAR2B	3
+s_38270	NUDT19	1
+s_12662	CNNM3	1
+s_51149	SLC18A2	1
+s_42223	PKP4	1
+s_31072	LIMK1	1
+s_6339	C12orf53	1
+s_26400	HTR3E	1
+s_43315	PPARD	1
+s_28264	JAM3	1
+s_33927	MIER1	1
+s_11251	CEP104	1
+s_33388	MED24	1
+s_53844	SRGAP1	1
+s_40003	PACSIN2	1
+s_5428	BIK	1
+s_28459	KAZN	1
+s_12578	CNBP	1
+s_20731	FCRL3	1
+s_41692	PHKB	3
+s_13730	CRTC2	1
+s_50741	SIKE1	2
+s_10340	CD276	1
+s_42441	PLD6	1
+s_32600	MAP2K1	2
+s_21836	FXYD3	5
+s_33227	MCTP2	1
+s_23930	GPS1	1
+s_58948	TRIM46	1
+s_23579	GPER	1
+s_19158	FABP12	1
+s_26003	HPGD	1
+s_12701	CNOT7	1
+s_41164	PDS5B	1
+s_35675	MYLIP	1
+s_54071	SSX5	1
+s_59652	TTC9C	1
+s_35593	MYH10	1
+s_28060	ITGB1BP1	1
+s_52258	SLC8A3	2
+s_52898	SNX14	1
+s_25618	HMGCS1	1
+s_5068	BBS9	1
+s_4389	ATP5J	1
+s_49674	SEC62	1
+s_10264	CD1D	1
+s_20442	FBXL16	1
+s_11296	CEP41	1
+s_64923	ZSCAN22	1
+s_43954	PRDX3	1
+s_41735	PHOX2A	1
+s_33740	MFSD11	1
+s_2779	AP000892.1	1
+s_12703	CNOT7	1
+s_23338	GNMT	1
+s_14454	CXXC1	1
+s_49387	SCO1	1
+s_9124	CARD8	1
+s_42754	PML	2
+s_38814	OPRD1	1
+s_40024	PADI4	1
+s_29225	KIAA1147	1
+s_43402	PPID	1
+s_58669	TRAF3IP3	1
+s_59528	TTC17	1
+s_19114	F2RL3	1
+s_3339	ARHGAP35	1
+s_1522	AGPAT2	1
+s_33006	MBD2	1
+s_64149	ZNF558	1
+s_9791	CCDC69	1
+s_51442	SLC25A4	1
+s_59174	TRPC4	1
+s_37772	NQO2	1
+s_28649	KCNH8	1
+s_39896	P2RX3	1
+s_44644	PSG4	1
+s_51440	SLC25A39	1
+s_23954	GPSM3	1
+s_58911	TRIM36	1
+s_20632	FBXW12	1
+s_50149	SETMAR	1
+s_42606	PLK4	2
+s_55148	TAB1	1
+s_64628	ZNF772	1
+s_10616	CDC34	1
+s_38307	NUDT8	1
+s_23831	GPR35	1
+s_17055	DUSP15	1
+s_6922	C19orf44	1
+s_42494	PLEKHF2	1
+s_2104	ALPK1	1
+s_17640	EGFR	1
+s_37797	NR1H3	1
+s_23299	GNG3	1
+s_9517	CCDC125	1
+s_7562	C22orf42	1
+s_38149	NTNG1	1
+s_64633	ZNF774	1
+s_34420	MORN3	1
+s_56144	TET2	1
+s_18093	EMC6	1
+s_63835	ZNF410	1
+s_35521	MYBPC1	1
+s_64601	ZNF75D	1
+s_42105	PITX2	1
+s_39091	OR2M4	2
+s_1765	AKAP13	1
+s_6189	C11orf45	1
+s_63701	ZNF330	1
+s_28136	ITM2A	1
+s_56984	TMCO1	1
+s_49007	SAMSN1	1
+s_33654	METTL7A	2
+s_41626	PHF14	1
+s_34072	MLF1	1
+s_8880	CALR	1
+s_8738	CACNB4	1
+s_64012	ZNF496	1
+s_59206	TRPM3	1
+s_3971	ASIC5	1
+s_190	ABCC10	1
+s_41999	PIM1	1
+s_64465	ZNF684	1
+s_18728	ESD	1
+s_33786	MGA	1
+s_39611	OS9	1
+s_3484	ARID1B	1
+s_1238	ADH4	1
+s_53695	SPRTN	1
+s_23676	GPR126	1
+s_26052	HRAS	1
+s_36545	NDUFS1	1
+s_63208	ZMAT5	1
+s_2908	APC	1
+s_15119	DCAF8	1
+s_64395	ZNF655	1
+s_54556	STUB1	1
+s_10027	CCNC	1
+s_20178	FAM83C	1
+s_38266	NUDT17	1
+s_63517	ZNF233	1
+s_5435	BIN1	3
+s_13322	CPEB3	3
+s_19210	FAHD2A	1
+s_28276	JDP2	1
+s_38449	NXF1	1
+s_44619	PSEN1	1
+s_49290	SCMH1	1
+s_63232	ZMYM3	1
+s_47908	RP11-173D9.3	1
+s_51358	SLC25A18	1
+s_42513	PLEKHG5	1
+s_270	ABHD1	1
+s_58611	TPSG1	1
+s_45665	RAB33A	1
+s_35550	MYCL1	1
+s_55953	TCTN3	1
+s_39190	OR4D5	1
+s_64862	ZP2	1
+s_48451	RRM2	1
+s_44136	PRKCZ	1
+s_12532	CMTM1	1
+s_13958	CSPP1	1
+s_61437	VSIG1	1
+s_2427	ANKH	1
+s_48236	RPP25	1
+s_25248	HHIP	1
+s_49666	SEC61A2	2
+s_40916	PDE1C	1
+s_51267	SLC22A3	2
+s_45250	PTPRU	1
+s_54454	STMN2	1
+s_50448	SH3BP5	1
+s_35505	MYB	1
+s_34174	MMD2	1
+s_43046	POLR1D	1
+s_26919	IGSF1	1
+s_59350	TSKU	1
+s_52462	SMAD3	1
+s_44496	PRSS22	1
+s_12310	CLIC1	1
+s_60920	USP38	1
+s_42557	PLEKHO2	1
+s_37636	NPEPL1	1
+s_56222	TFAP2A	1
+s_46417	RBM22	1
+s_20477	FBXL6	1
+s_30504	LAPTM4A	1
+s_49873	4-Sep	1
+s_22231	GAPDH	1
+s_24866	HCRT	1
+s_26084	HRH4	1
+s_266	ABCG8	1
+s_31387	LPCAT1	1
+s_38114	NTF3	1
+s_13990	CST11	1
+s_24036	GRB14	1
+s_50585	SHISA4	1
+s_14163	CTNNA1	1
+s_1729	AK2	1
+s_62985	ZFHX3	1
+s_21318	FNBP1L	1
+s_13575	CREBRF	1
+s_5344	BET1	1
+s_49424	SCRN2	1
+s_31170	LIPN	1
+s_54781	SURF2	1
+s_51325	SLC25A1	1
+s_34136	MLNR	1
+s_31677	LRRC31	1
+s_53307	SPARCL1	1
+s_28022	ITGA7	1
+s_31356	LOXL3	1
+s_118	ABCA12	1
+s_12481	CLUL1	1
+s_40393	PAX3	1
+s_39614	OS9	1
+s_22342	GBA2	1
+s_1136	ADC	1
+s_10401	CD37	1
+s_4512	ATP7A	1
+s_10615	CDC27	1
+s_54497	STOX1	1
+s_46754	REG4	1
+s_20299	FAP	1
+s_63316	ZNF138	1
+s_42213	PKP2	1
+s_52161	SLC6A4	1
+s_60954	USP48	1
+s_14721	CYP2C9	1
+s_54067	SSX3	1
+s_42512	PLEKHG5	1
+s_32324	MAD2L1BP	1
+s_26149	HSD11B1L	1
+s_62941	ZFAND1	1
+s_306	ABHD16A	1
+s_42173	PKIG	1
+s_33499	MEOX1	1
+s_2639	ANKS1A	1
+s_9221	CASP4	2
+s_60951	USP48	1
+s_42487	PLEKHB2	1
+s_12463	CLTB	1
+s_17140	DYDC2	1
+s_15238	DCTD	1
+s_32766	MAPK8IP3	1
+s_6844	C18orf1	1
+s_29768	KLHL25	1
+s_58192	TNIP3	1
+s_26239	HSF4	1
+s_14209	CTRL	1
+s_7539	C22orf25	1
+s_21263	FMNL3	1
+s_56798	TLK1	1
+s_30163	KRT80	1
+s_28530	KCNAB1	1
+s_50079	SESN2	1
+s_17622	EGFL7	1
+s_27107	IL17RE	1
+s_61128	VASH2	1
+s_7629	C2orf44	1
+s_59045	TRIML2	1
+s_53186	SP110	1
+s_44696	PSMA8	1
+s_4081	ATAT1	1
+s_59776	TUBA3C	1
+s_26981	IKBKB	1
+s_11984	CINP	1
+s_38231	NUDT1	1
+s_34096	MLKL	1
+s_39703	OSM	1
+s_44761	PSMC4	1
+s_29844	KLK1	1
+s_46470	RBM43	1
+s_21735	FTSJ1	1
+s_54159	ST7L	1
+s_29161	KIAA0586	1
+s_62066	WNT11	1
+s_32768	MAPK9	1
+s_38834	OPTC	1
+s_27041	IL12RB2	1
+s_25301	HIGD1C	1
+s_48626	RTN4	1
+s_2191	AMBRA1	1
+s_64637	ZNF775	1
+s_24425	GTF2IRD1	2
+s_28025	ITGA7	1
+s_21739	FTSJ2	1
+s_56140	TET1	1
+s_18340	EOGT	1
+s_48335	RPS6KA1	1
+s_8918	CAMK2N1	1
+s_9126	CARD8	1
+s_34993	MSC	1
+s_62519	YY1AP1	1
+s_17754	EIF2B2	1
+s_3894	ASB7	1
+s_1366	ADRBK2	1
+s_63368	ZNF169	1
+s_33217	MCRS1	1
+s_791	ACSS3	1
+s_3070	APOL5	1
+s_158	ABCB4	1
+s_46169	RASAL2	1
+s_31573	LRP3	1
+s_15806	DGKQ	1
+s_3426	ARHGEF2	1
+s_22505	GDAP2	1
+s_43731	PPP4R4	1
+s_62463	YPEL3	1
+s_1351	ADRA2A	1
+s_58570	TPPP	1
+s_27563	INPP5K	1
+s_64662	ZNF783	1
+s_43701	PPP2R5D	1
+s_41032	PDE9A	1
+s_40077	PAIP2B	1
+s_55106	SYTL2	1
+s_36104	NAT1	1
+s_5659	BPIFA2	1
+s_24738	HAS3	1
+s_23688	GPR135	1
+s_44125	PRKCI	1
+s_42154	PKDCC	1
+s_52320	SLC9B2	1
+s_56287	TFF1	1
+s_26218	HSDL1	1
+s_48811	S100A14	1
+s_27403	IMMT	1
+s_44547	PRSS50	1
+s_13554	CREB3L3	1
+s_52812	SNRNP35	1
+s_9678	CCDC28B	1
+s_42982	POLD4	1
+s_9038	CAPN3	1
+s_24550	GYG1	1
+s_7927	C4orf19	1
+s_59893	TWF2	1
+s_21776	FUS	1
+s_38699	OLA1	1
+s_15466	DDX54	1
+s_57105	TMEM110	1
+s_47396	RIPPLY2	1
+s_29679	KLHDC3	1
+s_19864	FAM214B	1
+s_22859	GIT2	1
+s_63818	ZNF397	1
+s_62767	ZC3HAV1	1
+s_30390	LAD1	1
+s_54683	SULT1C3	1
+s_29008	KDM5D	1
+s_24721	HARS	1
+s_19875	FAM217A	1
+s_33598	METTL18	1
+s_43299	PPAPDC1B	1
+s_23606	GPM6A	1
+s_8917	CAMK2G	1
+s_7803	C3orf22	1
+s_52734	SNAP91	2
+s_46558	RBPJL	1
+s_44462	PRRT2	1
+s_30938	LHB	1
+s_33858	MIA2	1
+s_1394	AEN	1
+s_39870	OXSR1	1
+s_4906	BAG6	1
+s_16155	DLK2	1
+s_35274	MTMR4	1
+s_10518	CD81	1
+s_39057	OR2F2	1
+s_43913	PRDM16	1
+s_34638	MRPL1	1
+s_612	ACER3	1
+s_32740	MAPK3	1
+s_16130	DLGAP1	1
+s_15564	DEFB119	1
+s_41047	PDGFC	1
+s_30824	LEPRE1	1
+s_19702	FAM189B	1
+s_16740	DPM3	1
+s_13557	CREB3L4	1
+s_10008	CCNA1	1
+s_58486	TP73	1
+s_18717	ESAM	1
+s_63612	ZNF280D	1
+s_14187	CTNND2	1
+s_59449	TSPO2	1
+s_42709	PLXNB3	1
+s_39221	OR4M2	1
+s_49750	SEMA3F	1
+s_8476	C9orf3	1
+s_45561	RAB11A	1
+s_5542	BMP5	1
+s_1064	ADAMTS4	1
+s_5354	BET3L	1
+s_17631	EGFLAM	1
+s_36593	NEBL	1
+s_6085	C10orf2	1
+s_13428	CPSF3L	1
+s_25023	HECW1	1
+s_3641	ARMC9	1
+s_56315	TFPT	1
+s_3278	ARHGAP22	1
+s_49946	SERPINA1	1
+s_20760	FDFT1	1
+s_26065	HRCT1	1
+s_50473	SH3GL1	1
+s_22971	GLI1	1
+s_24638	H6PD	1
+s_40488	PCDH11X	1
+s_61210	VEGFB	1
+s_28841	KCNQ5	1
+s_43717	PPP3R1	1
+s_25342	HIRA	1
+s_57951	TMPRSS4	1
+s_34011	MITF	1
+s_54412	STK32B	1
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+s_51701	SLC34A3	1
+s_54291	STAT4	1
+s_24419	GTF2I	1
+s_45973	RALB	1
+s_28705	KCNJ6	1
+s_5581	BNIP1	1
+s_19856	FAM213A	1
+s_18308	ENTPD1	1
+s_59198	TRPM1	1
+s_21871	FZD10	1
+s_1850	AKR1C4	1
+s_6867	C18orf54	1
+s_35715	MYO18B	1
+s_22242	GAPVD1	1
+s_32713	MAP7D3	1
+s_49953	SERPINA12	1
+s_55916	TCP11	1
+s_56174	TEX19	1
+s_22072	GAL	1
+s_41033	PDE9A	1
+s_26471	HYAL3	1
+s_60244	UBE2Z	1
+s_12589	CNEP1R1	1
+s_29896	KLK8	1
+s_29769	KLHL26	1
+s_39346	OR5AP2	1
+s_15213	DCPS	1
+s_48577	RTBDN	1
+s_32146	LYAR	1
+s_26382	HTR3C	1
+s_33001	MBD1	1
+s_41972	PIK3R2	1
+s_33212	MCOLN3	1
+s_35423	MUL1	1
+s_7838	C3orf35	1
+s_51092	SLC16A4	1
+s_20336	FASTK	1
+s_33469	MEI1	1
+s_5549	BMP7	1
+s_2490	ANKRD16	1
+s_38674	OGFRL1	1
+s_26322	HSPBAP1	1
+s_31244	LMNA	1
+s_34063	MLC1	1
+s_15550	DEFB113	1
+s_52892	SNX12	1
+s_25799	HOOK2	1
+s_55486	TAX1BP1	1
+s_4351	ATP5A1	1
+s_49917	SERHL2	1
+s_46614	RCHY1	1
+s_62680	ZBTB7B	1
+s_49488	SDCBP	1
+s_21866	FYTTD1	1
+s_23092	GLTPD1	1
+s_10675	CDC73	1
+s_12764	CNTN2	1
+s_9223	CASP5	1
+s_38310	NUDT8	1
+s_7059	C1QTNF9B	1
+s_33162	MCM3AP	1
+s_8498	C9orf50	1
+s_16876	DSC1	1
+s_14370	CWH43	1
+s_22565	GDPD1	1
+s_4304	ATP1B4	1
+s_3600	ARMC10	1
+s_18120	EMID1	1
+s_21865	FYN	1
+s_60042	U2SURP	1
+s_13930	CSNK1G3	1
+s_6618	C16orf53	1
+s_26173	HSD17B12	1
+s_46035	RANBP3L	1
+s_13167	CORO2A	1
+s_10481	CD6	1
+s_4563	ATPIF1	1
+s_50071	SERTAD4	1
+s_39089	OR2M3	1
+s_58390	TOR1AIP2	1
+s_45132	PTPN2	1
+s_34536	MPPED2	1
+s_24336	GSTM5	1
+s_38670	OGFR	1
+s_4606	ATXN3	1
+s_5049	BBS12	1
+s_28134	ITM2A	1
+s_23612	GPN1	1
+s_16085	DLEC1	1
+s_2525	ANKRD28	1
+s_1792	AKAP7	1
+s_27701	IPO11	1
+s_25633	HMGN5	1
+s_33287	MDM4	1
+s_17847	EIF4E	1
+s_58327	TOMM34	1
+s_54101	ST3GAL3	1
+s_41507	PGLYRP3	1
+s_38705	OLAH	1
+s_7336	C1orf61	1
+s_34439	MOSPD3	1
+s_33343	MED12	1
+s_30145	KRT75	1
+s_7793	C3orf18	1
+s_13874	CSH2	1
+s_14274	CTTN	1
+s_38166	NTRK2	1
+s_2916	APCDD1L	1
+s_41582	PHB	1
+s_16033	DISC1	1
+s_54156	ST7L	1
+s_21942	GABARAPL1	1
+s_19312	FAM115C	1
+s_5431	BIN1	1
+s_44378	PRR15	1
+s_22113	GALNT1	1
+s_11744	CHN1	1
+s_13702	CROT	1
+s_14052	CT62	1
+s_28143	ITM2C	1
+s_43456	PPM1B	1
+s_1396	AES	1
+s_21931	GAB2	1
+s_39536	OR8J3	1
+s_62622	ZBTB37	1
+s_10417	CD3G	1
+s_23789	GPR176	1
+s_37011	NICN1	1
+s_55412	TAS1R2	1
+s_36626	NEDD4L	1
+s_62812	ZCCHC4	1
+s_18097	EMC7	1
+s_36145	NAV2	1
+s_18994	EXOG	1
+s_61047	UTY	1
+s_57912	TMPRSS11B	1
+s_56577	THUMPD1	1
+s_8419	C9orf123	1
+s_36127	NAT9	1
+s_57557	TMEM240	1
+s_36157	NBEA	1
+s_16271	DMRTA2	1
+s_44643	PSG4	1
+s_53557	SPINK8	1
+s_36256	NCF4	1
+s_46280	RASSF6	1
+s_47580	RNF141	1
+s_8514	C9orf71	1
+s_62629	ZBTB4	1
+s_4286	ATP1A3	1
+s_36001	NAGK	1
+s_38778	OPA3	1
+s_8907	CAMK2A	1
+s_10448	CD5	1
+s_20085	FAM69B	1
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+s_56204	TEX34	1
+s_30139	KRT72	1
+s_34962	MS4A6A	1
+s_12886	COL17A1	1
+s_46458	RBM4	1
+s_37813	NR1I3	1
+s_10007	CCNA1	0
+s_10164	CCS	0
+s_10200	CCT7	0
+s_10232	CD164	0
+s_1035	ADAMTS14	0
+s_10381	CD300LG	0
+s_10402	CD37	0
+s_10405	CD38	0
+s_10408	CD3D	0
+s_10425	CD40	0
+s_10434	CD44	0
+s_10437	CD46	0
+s_10541	CD8B	0
+s_10563	CD99L2	0
+s_10582	CDC14B	0
+s_10594	CDC20B	0
+s_10657	CDC42SE2	0
+s_10658	CDC42SE2	0
+s_10785	CDH3	0
+s_10943	CDKL5	0
+s_1101	ADAMTSL4	0
+s_11025	CDSN	0
+s_11054	CEACAM1	0
+s_1113	ADAR	0
+s_11153	CELF4	0
+s_1116	ADARB1	0
+s_11218	CENPL	0
+s_11222	CENPM	0
+s_1127	ADAT2	0
+s_11294	CEP41	0
+s_11317	CEP63	0
+s_11456	CFH	0
+s_11585	CHD1	0
+s_11598	CHD3	0
+s_11692	CHL1	0
+s_1177	ADCY3	0
+s_1179	ADCY4	0
+s_1183	ADCY5	0
+s_11877	CHST13	0
+s_11928	CHUK	0
+s_12015	CITED1	0
+s_12019	CIZ1	0
+s_12021	CIZ1	0
+s_12049	CKLF-CMTM1	0
+s_12057	CKMT2	0
+s_12082	CLCC1	0
+s_12089	CLCF1	0
+s_1212	ADD1	0
+s_12120	CLCN7	0
+s_12121	CLCN7	0
+s_12138	CLDN10	0
+s_12140	CLDN10	0
+s_12177	CLDN2	0
+s_12187	CLDN25	0
+s_12203	CLDND1	0
+s_12209	CLDND2	0
+s_12420	CLPTM1	0
+s_12425	CLPX	0
+s_12433	CLRN2	0
+s_12522	CMPK2	0
+s_12576	CNBP	0
+s_12611	CNGB1	0
+s_12624	CNIH2	0
+s_12666	CNNM3	0
+s_12708	CNP	0
+s_12856	COG8	0
+s_12875	COL14A1	0
+s_12906	COL22A1	0
+s_12923	COL27A1	0
+s_13026	COLEC12	0
+s_13035	COMMD1	0
+s_13067	COMT	0
+s_13091	COPG1	0
+s_13123	COQ2	0
+s_13198	COX11	0
+s_13220	COX4I2	0
+s_13253	COX7A2L	0
+s_13287	CPA5	0
+s_13290	CPA6	0
+s_13309	CPE	0
+s_13328	CPED1	0
+s_13338	CPLX3	0
+s_13387	CPO	0
+s_13389	CPO	0
+s_13393	CPOX	0
+s_13405	CPS1	0
+s_13486	CR2	0
+s_13512	CRB1	0
+s_1357	ADRB1	0
+s_13579	CREBZF	0
+s_13662	CRK	0
+s_13686	CRMP1	0
+s_13718	CRTAM	0
+s_13755	CRYBA1	0
+s_13856	CSF3	0
+s_13857	CSF3	0
+s_13879	CSHL1	0
+s_1393	AEN	0
+s_13937	CSNK2A1	0
+s_13985	CSRP3	0
+s_14021	CSTA	0
+s_14099	CTCFL	0
+s_14107	CTD-2616J11.4	0
+s_14153	CTIF	0
+s_14189	CTNND2	0
+s_14226	CTSC	0
+s_14286	CTU2	0
+s_14338	CUTA	0
+s_14364	CWF19L1	0
+s_14369	CWH43	0
+s_14418	CXCL3	0
+s_14425	CXCL6	0
+s_14439	CXCR4	0
+s_14463	CXXC4	0
+s_14467	CXXC5	0
+s_1450	AGA	0
+s_14520	CXorf61	0
+s_14586	CYBA	0
+s_14670	CYP26A1	0
+s_14761	CYP3A4	0
+s_14894	DAB2IP	0
+s_14938	DALRD3	0
+s_14995	DAXX	0
+s_14996	DAXX	0
+s_15017	DBF4	0
+s_15052	DBP	0
+s_15113	DCAF6	0
+s_15182	DCLRE1A	0
+s_15320	DDI1	0
+s_15363	DDX17	0
+s_15385	DDX23	0
+s_15405	DDX31	0
+s_15438	DDX46	0
+s_15440	DDX47	0
+s_15472	DDX58	0
+s_15482	DDX6	0
+s_15488	DDX60L	0
+s_1549	AGPS	0
+s_1550	AGPS	0
+s_15520	DEF8	0
+s_15522	DEF8	0
+s_15563	DEFB119	0
+s_15566	DEFB119	0
+s_15586	DEFB127	0
+s_15648	DENND2D	0
+s_15655	DENND4A	0
+s_15679	DEPDC1	0
+s_15700	DERL1	0
+s_15731	DFFB	0
+s_15800	DGKI	0
+s_15867	DHRS3	0
+s_15897	DHX16	0
+s_15939	DHX40	0
+s_15965	DIAPH3	0
+s_15988	DIO1	0
+s_1599	AGXT2L1	0
+s_1609	AHCY	0
+s_16149	DLGAP5	0
+s_16175	DLX1	0
+s_16190	DLX3	0
+s_16294	DMXL2	0
+s_16341	DNAH9	0
+s_16417	DNAJC13	0
+s_16505	DNALI1	0
+s_16506	DNALI1	0
+s_16554	DNM2	0
+s_16577	DNMT3A	0
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+s_1663	AIF1L	0
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+s_16745	DPP10	0
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+s_16866	DRGX	0
+s_16867	DRGX	0
+s_1687	AIM1	0
+s_16878	DSC1	0
+s_16993	DUOX1	0
+s_17119	DUT	0
+s_17168	DYNC2LI1	0
+s_17195	DYRK1B	0
+s_17214	DYX1C1	0
+s_17224	DZIP1L	0
+s_17229	E2F1	0
+s_17374	ECT2	0
+s_17432	EDN2	0
+s_17440	EDNRA	0
+s_17442	EDNRB	0
+s_17459	EEF1D	0
+s_1766	AKAP14	0
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+s_17762	EIF2B4	0
+s_1779	AKAP4	0
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+s_17901	EIF5A2	0
+s_17942	ELF1	0
+s_17959	ELF5	0
+s_18018	ELOF1	0
+s_18106	EMCN	0
+s_18119	EMID1	0
+s_18125	EMILIN1	0
+s_18145	EML2	0
+s_18170	EMR1	0
+s_18171	EMR1	0
+s_18273	ENPP3	0
+s_1834	AKR1B10	0
+s_18362	EPB41L1	0
+s_18365	EPB41L1	0
+s_18409	EPHA10	0
+s_18423	EPHA4	0
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+s_18531	EPS8L3	0
+s_18567	ERBB2IP	0
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+s_18710	ERRFI1	0
+s_18739	ESM1	0
+s_18757	ESR2	0
+s_18767	ESRRA	0
+s_18772	ESRRB	0
+s_18782	ESYT1	0
+s_18809	ETHE1	0
+s_18849	ETV3	0
+s_18865	ETV4	0
+s_18908	EVL	0
+s_18920	EVX2	0
+s_18965	EXOC3L4	0
+s_19006	EXOSC3	0
+s_19048	EXTL2	0
+s_19126	F7	0
+s_19215	FAIM	0
+s_19254	FAM104A	0
+s_19255	FAM104B	0
+s_19499	FAM159A	0
+s_19605	FAM173B	0
+s_19614	FAM175B	0
+s_19633	FAM178A	0
+s_19664	FAM183A	0
+s_19674	FAM186A	0
+s_19699	FAM189B	0
+s_1971	ALDH8A1	0
+s_19728	FAM193A	0
+s_19736	FAM194A	0
+s_19744	FAM195B	0
+s_19747	FAM195B	0
+s_19859	FAM213B	0
+s_1992	ALG1	0
+s_200	ABCC2	0
+s_20007	FAM53A	0
+s_20077	FAM65B	0
+s_20080	FAM65C	0
+s_20106	FAM71B	0
+s_20116	FAM71E1	0
+s_20130	FAM73A	0
+s_20176	FAM83B	0
+s_2023	ALG3	0
+s_20269	FANCC	0
+s_20325	FAS	0
+s_2037	ALG9	0
+s_20377	FAXC	0
+s_20487	FBXO11	0
+s_2053	ALKBH4	0
+s_20616	FBXO7	0
+s_20635	FBXW2	0
+s_20686	FCGR1A	0
+s_20794	FEM1C	0
+s_20861	FGD1	0
+s_2092	ALOX5AP	0
+s_20946	FGF5	0
+s_21104	FIP1L1	0
+s_21231	FLT4	0
+s_21281	FMO4	0
+s_21342	FNDC5	0
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+s_21504	FOXP1	0
+s_21627	FRMD8	0
+s_21642	FRRS1	0
+s_21650	FRS3	0
+s_21725	FTH1	0
+s_21736	FTSJ1	0
+s_21781	FUT10	0
+s_21813	FUZ	0
+s_21845	FXYD5	0
+s_21887	FZD8	0
+s_21895	G0S2	0
+s_21912	G6PC2	0
+s_21927	GAB1	0
+s_22006	GABRG2	0
+s_22033	GAD1	0
+s_2205	AMELX	0
+s_22151	GALNT5	0
+s_2226	AMIGO2	0
+s_22316	GATAD2A	0
+s_2238	AMMECR1L	0
+s_22485	GCNT2	0
+s_22537	GDF5	0
+s_22595	GEMIN5	0
+s_22608	GEMIN8	0
+s_22699	GGCX	0
+s_22715	GGPS1	0
+s_22741	GH1	0
+s_22810	GIMAP8	0
+s_2306	ANAPC11	0
+s_23236	GNAS	0
+s_23343	GNPDA1	0
+s_23423	GOLT1B	0
+s_23608	GPM6B	0
+s_23618	GPN3	0
+s_23683	GPR132	0
+s_2376	ANGPTL6	0
+s_23767	GPR161	0
+s_23963	GPT2	0
+s_23969	GPX2	0
+s_24129	GRIN2D	0
+s_24146	GRIP1	0
+s_24174	GRM3	0
+s_24199	GRM8	0
+s_24201	GRN	0
+s_24204	GRP	0
+s_24320	GSTCD	0
+s_24383	GTF2A2	0
+s_24430	GTF3C1	0
+s_24448	GTF3C5	0
+s_24533	GUK1	0
+s_2464	ANKRD10	0
+s_24644	HAAO	0
+s_24664	HADHB	0
+s_24741	HAT1	0
+s_24916	HDAC8	0
+s_24922	HDAC9	0
+s_24936	HDGF	0
+s_2497	ANKRD18A	0
+s_25016	HECTD3	0
+s_25027	HECW2	0
+s_2509	ANKRD23	0
+s_25157	HESX1	0
+s_25264	HHLA3	0
+s_25337	HIPK4	0
+s_25380	HIST1H2BC	0
+s_2539	ANKRD33	0
+s_25606	HMGCL	0
+s_25692	HNF1B	0
+s_25696	HNF4A	0
+s_25732	HNRNPCL1	0
+s_2579	ANKRD44	0
+s_2580	ANKRD44	0
+s_25914	HOXC6	0
+s_25988	HPD	0
+s_26064	HRC	0
+s_26290	HSPA8	0
+s_26388	HTR3D	0
+s_26556	ICT1	0
+s_26557	ICT1	0
+s_26805	IGDCC3	0
+s_26858	IGFBP4	0
+s_26862	IGFBP5	0
+s_26987	IKBKG	0
+s_27005	IKZF3	0
+s_27030	IL12A	0
+s_27046	IL13	0
+s_27111	IL17REL	0
+s_27114	IL18	0
+s_27146	IL1F10	0
+s_27151	IL1R1	0
+s_27183	IL1RN	0
+s_27202	IL20RB	0
+s_27215	IL22RA1	0
+s_27236	IL24	0
+s_27265	IL2RA	0
+s_27266	IL2RA	0
+s_2729	ANXA11	0
+s_27311	IL36G	0
+s_27324	IL37	0
+s_27330	IL4I1	0
+s_27332	IL4I1	0
+s_27347	IL6R	0
+s_27412	IMPA1	0
+s_27482	ING4	0
+s_27571	INS	0
+s_27580	INSIG1	0
+s_27604	INSM2	0
+s_27693	IP6K3	0
+s_27760	IQCF1	0
+s_27828	IRAK2	0
+s_27843	IRF1	0
+s_27868	IRF6	0
+s_27958	IST1	0
+s_27995	ITGA11	0
+s_28004	ITGA3	0
+s_2807	AP2A1	0
+s_28135	ITM2A	0
+s_28192	ITSN1	0
+s_28215	IYD	0
+s_2828	AP3B2	0
+s_28288	JMJD1C	0
+s_2837	AP3S1	0
+s_28436	KAT8	0
+s_28463	KAZN	0
+s_28510	KCNA10	0
+s_28650	KCNIP1	0
+s_28680	KCNJ13	0
+s_28725	KCNK10	0
+s_28742	KCNK16	0
+s_28750	KCNK18	0
+s_28834	KCNQ4	0
+s_29117	KIAA0284	0
+s_29140	KIAA0430	0
+s_29312	KIAA1598	0
+s_29387	KIF13A	0
+s_29471	KIF2B	0
+s_29554	KIRREL3	0
+s_29561	KISS1	0
+s_29590	KLC3	0
+s_29591	KLC4	0
+s_29627	KLF15	0
+s_2968	APLP1	0
+s_29735	KLHL18	0
+s_29841	KLHL8	0
+s_29843	KLHL9	0
+s_29897	KLK8	0
+s_299	ABHD14B	0
+s_30162	KRT8	0
+s_30215	KRTAP12-3	0
+s_30263	KRTAP26-1	0
+s_30311	KRTAP9-3	0
+s_30357	L3MBTL1	0
+s_30378	LACE1	0
+s_30446	LAMC1	0
+s_3051	APOF	0
+s_30538	LARP7	0
+s_30551	LAS1L	0
+s_30559	LAT	0
+s_30590	LBR	0
+s_3067	APOL3	0
+s_30738	LDHD	0
+s_30741	LDLR	0
+s_30745	LDLRAD1	0
+s_30755	LDLRAP1	0
+s_30825	LEPRE1	0
+s_30864	LGALS12	0
+s_30870	LGALS14	0
+s_31007	LIAS	0
+s_31011	LIF	0
+s_31023	LIG4	0
+s_31115	LIN9	0
+s_31142	LIPF	0
+s_31160	LIPJ	0
+s_3120	AQP10	0
+s_31206	LMAN2	0
+s_31223	LMBRD2	0
+s_31279	LMOD1	0
+s_31294	LMX1A	0
+s_31338	LOX	0
+s_31344	LOXHD1	0
+s_3141	AQP6	0
+s_31415	LPHN3	0
+s_31436	LPL	0
+s_3145	AQP7	0
+s_31454	LPPR5	0
+s_3146	AQP8	0
+s_3152	AQP9	0
+s_31550	LRP12	0
+s_31587	LRP8	0
+s_316	ABHD2	0
+s_31657	LRRC25	0
+s_3173	ARAP2	0
+s_31733	LRRC42	0
+s_31805	LRRC71	0
+s_31854	LRRFIP2	0
+s_32	AADACL2	0
+s_32012	LTBP1	0
+s_32024	LTBP3	0
+s_32073	LUZP1	0
+s_32131	LY75-CD302	0
+s_32160	LYL1	0
+s_32271	LZIC	0
+s_32315	MACROD2	0
+s_32407	MAGEC3	0
+s_32418	MAGEE2	0
+s_32434	MAGI3	0
+s_32474	MAMDC4	0
+s_32504	MAN1A2	0
+s_32521	MAN2B1	0
+s_32555	MANSC1	0
+s_32594	MAP2	0
+s_32656	MAP3K7	0
+s_32657	MAP3K7	0
+s_32687	MAP6	0
+s_32689	MAP6	0
+s_32700	MAP7	0
+s_32773	MAPKAP1	0
+s_32837	4-Mar	0
+s_32844	6-Mar	0
+s_32962	MATN3	0
+s_3297	ARHGAP26	0
+s_33017	MBD4	0
+s_3312	ARHGAP30	0
+s_33131	MCF2	0
+s_3317	ARHGAP30	0
+s_33192	MCM9	0
+s_33218	MCRS1	0
+s_33319	MECP2	0
+s_33476	MEIS2	0
+s_33561	METTL1	0
+s_33565	METTL11B	0
+s_33625	METTL23	0
+s_33723	MFNG	0
+s_33750	MFSD2B	0
+s_338	ABI1	0
+s_33812	MGAT4B	0
+s_33844	MGST1	0
+s_33885	MICAL3	0
+s_33958	MINA	0
+s_34151	MLXIPL	0
+s_34213	MMP2	0
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+s_34294	MNT	0
+s_34310	MOB1B	0
+s_3432	ARHGEF26	0
+s_3437	ARHGEF3	0
+s_34406	MORF4L2	0
+s_34464	MPDZ	0
+s_34474	MPHOSPH10	0
+s_34503	MPND	0
+s_34529	MPP7	0
+s_34624	MRI1	0
+s_34715	MRPL33	0
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+s_34918	MRVI1	0
+s_34944	MS4A14	0
+s_35008	MSH4	0
+s_35013	MSH4	0
+s_35139	MTA1	0
+s_35186	MTF1	0
+s_3526	ARL11	0
+s_35281	MTMR7	0
+s_35375	MUC1	0
+s_35396	MUC21	0
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+s_3544	ARL16	0
+s_35478	MXD1	0
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+s_35497	MXRA7	0
+s_35519	MYBPC1	0
+s_35569	MYD88	0
+s_35596	MYH11	0
+s_35682	MYLK	0
+s_35796	MYOF	0
+s_35811	MYOM3	0
+s_35836	MYPOP	0
+s_35923	NAA60	0
+s_35935	NAALADL2	0
+s_35964	NACC1	0
+s_35973	NADK	0
+s_36044	NANS	0
+s_36143	NAV2	0
+s_36222	NCAPH2	0
+s_36273	NCKAP1L	0
+s_36282	NCKAP5	0
+s_36286	NCKIPSD	0
+s_36335	NCR1	0
+s_36342	NCR3	0
+s_36351	NCS1	0
+s_36386	NDOR1	0
+s_36482	NDUFAF3	0
+s_3650	ARMCX4	0
+s_36519	NDUFB5	0
+s_3668	ARNTL2	0
+s_3670	ARPC1A	0
+s_36703	NELF	0
+s_36740	NEU1	0
+s_36825	NFATC2	0
+s_37035	NINJ1	0
+s_37048	NIPA1	0
+s_37084	NIT1	0
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+s_37103	NKAIN4	0
+s_37151	NKX2-5	0
+s_37222	NLRC4	0
+s_37258	NLRP3	0
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+s_37286	NMB	0
+s_37326	NME7	0
+s_37384	NMUR1	0
+s_37407	NOA1	0
+s_37430	NODAL	0
+s_37438	NOL10	0
+s_37451	NOL4	0
+s_37502	NOS1	0
+s_37572	NOX1	0
+s_37579	NOX4	0
+s_37655	NPHP1	0
+s_37801	NR1H4	0
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+s_37816	NR2C1	0
+s_37863	NR4A2	0
+s_37868	NR4A3	0
+s_3791	ARV1	0
+s_37945	NRL	0
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+s_37972	NRSN2	0
+s_37991	NRXN2	0
+s_38022	NSFL1C	0
+s_38097	NT5DC2	0
+s_38124	NTM	0
+s_3813	ASAP1	0
+s_38169	NTRK2	0
+s_38179	NTSR2	0
+s_38202	NUBP2	0
+s_38205	NUBPL	0
+s_38212	NUCB2	0
+s_38225	NUDCD2	0
+s_38305	NUDT7	0
+s_38336	NUMB	0
+s_3841	ASB11	0
+s_38429	NUSAP1	0
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+s_38516	NYX	0
+s_38525	OAS1	0
+s_38567	OBSL1	0
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+s_38602	ODAM	0
+s_38679	OGG1	0
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+s_3888	ASB6	0
+s_38901	OR10W1	0
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+s_39135	OR2T8	0
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+s_39620	OSBP2	0
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+s_39654	OSBPL5	0
+s_39737	OTOA	0
+s_39747	OTOF	0
+s_39802	OTUD7A	0
+s_39865	OXSM	0
+s_39964	PABPC1	0
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+s_39987	PACRGL	0
+s_40004	PACSIN2	0
+s_40016	PADI2	0
+s_40055	PAGE2B	0
+s_40089	PAK2	0
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+s_40137	PAM	0
+s_40148	PAN2	0
+s_40156	PANK1	0
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+s_40182	PAOX	0
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+s_40227	PAQR5	0
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+s_40261	PARD6B	0
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+s_40392	PAX3	0
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+s_40436	PBOV1	0
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+s_40487	PCDH11X	0
+s_40510	PCDH19	0
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+s_40597	PCDHB2	0
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+s_40925	PDE2A	0
+s_40936	PDE4A	0
+s_41027	PDE8B	0
+s_41077	PDIA2	0
+s_41084	PDIA4	0
+s_41138	PDLIM5	0
+s_41141	PDLIM7	0
+s_41145	PDP1	0
+s_41185	PDYN	0
+s_41279	PELP1	0
+s_41294	PER2	0
+s_41347	PEX19	0
+s_41439	PFN4	0
+s_41474	PGBD2	0
+s_41620	PHF13	0
+s_41701	PHKG2	0
+s_41772	PHYHIPL	0
+s_41807	PIAS1	0
+s_41879	PIGR	0
+s_41955	PIK3CD	0
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+s_42055	PIP5KL1	0
+s_42068	PISD	0
+s_42081	PITPNC1	0
+s_4209	ATL2	0
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+s_42148	PKD2L2	0
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+s_42181	PKM	0
+s_42215	PKP3	0
+s_4224	ATN1	0
+s_42243	PLA2G16	0
+s_42261	PLA2G2E	0
+s_42292	PLA2G5	0
+s_42305	PLA2R1	0
+s_42321	PLAC8L1	0
+s_42351	PLB1	0
+s_42366	PLCB2	0
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+s_42446	PLEC	0
+s_42467	PLEKHA5	0
+s_42519	PLEKHG6	0
+s_42536	PLEKHM1	0
+s_42544	PLEKHM3	0
+s_42554	PLEKHO1	0
+s_42560	PLEKHS1	0
+s_42616	PLOD1	0
+s_42663	PLSCR5	0
+s_42751	PML	0
+s_42792	PNCK	0
+s_42839	PNN	0
+s_42932	PODXL2	0
+s_43016	POLK	0
+s_43060	POLR2C	0
+s_43122	POLR3G	0
+s_43155	POMT1	0
+s_43158	POMT1	0
+s_43253	POU6F2	0
+s_43302	PPAPDC1B	0
+s_43354	PPFIA1	0
+s_4339	ATP2C1	0
+s_43430	PPIL4	0
+s_43445	PPM1A	0
+s_43527	PPP1R12B	0
+s_43533	PPP1R13B	0
+s_43542	PPP1R14A	0
+s_43623	PPP1R3F	0
+s_43629	PPP1R42	0
+s_43789	PQLC2	0
+s_43834	PRAMEF13	0
+s_43837	PRAMEF16	0
+s_43862	PRB4	0
+s_4406	ATP5S	0
+s_44065	PRKACB	0
+s_44075	PRKAG2	0
+s_44091	PRKAR1B	0
+s_441	AC013461.1	0
+s_44162	PRKRA	0
+s_44181	PRLH	0
+s_44189	PRLR	0
+s_44260	PROKR1	0
+s_44270	PROM1	0
+s_44298	PRPF18	0
+s_44319	PRPF39	0
+s_44361	PRPSAP2	0
+s_44460	PRRT2	0
+s_44485	PRSS12	0
+s_4457	ATP6V0E2	0
+s_44634	PSG11	0
+s_44654	PSG8	0
+s_44726	PSMB5	0
+s_44739	PSMB8	0
+s_44746	PSMB9	0
+s_44782	PSMD13	0
+s_44808	PSMD8	0
+s_44910	PTCH1	0
+s_44935	PTCHD4	0
+s_45050	PTK2	0
+s_4507	ATP6V1H	0
+s_45113	PTPN12	0
+s_45128	PTPN18	0
+s_45139	PTPN22	0
+s_45141	PTPN22	0
+s_45165	PTPN7	0
+s_4523	ATP8A1	0
+s_45249	PTPRU	0
+s_45290	PUF60	0
+s_45296	PUM1	0
+s_45536	R3HCC1L	0
+s_45566	RAB11FIP1	0
+s_45586	RAB11FIP5	0
+s_45600	RAB15	0
+s_45601	RAB15	0
+s_45604	RAB17	0
+s_45627	RAB24	0
+s_45707	RAB3C	0
+s_45729	RAB3IP	0
+s_45763	RAB6A	0
+s_45796	RAB9B	0
+s_45894	RAD51AP1	0
+s_45908	RAD51C	0
+s_45960	RAI14	0
+s_45961	RAI14	0
+s_46068	RAP1GDS1	0
+s_46107	RAPH1	0
+s_46265	RASSF4	0
+s_46298	RAVER2	0
+s_46321	RBBP5	0
+s_46328	RBBP7	0
+s_46355	RBFOX3	0
+s_46452	RBM39	0
+s_46581	RCAN1	0
+s_46634	RCOR2	0
+s_46639	RCSD1	0
+s_46646	RD3	0
+s_46657	RDH10	0
+s_46672	RDH13	0
+s_46717	REEP1	0
+s_46821	RERG	0
+s_46827	RERGL	0
+s_46848	RETNLB	0
+s_46976	RFXANK	0
+s_47005	RGL2	0
+s_4703	AXIN1	0
+s_47100	RGS3	0
+s_47144	RHAG	0
+s_47186	RHD	0
+s_47216	RHOC	0
+s_47394	RIPPLY1	0
+s_47413	RLBP1	0
+s_47554	RNF130	0
+s_47584	RNF144A	0
+s_47594	RNF145	0
+s_47622	RNF165	0
+s_47710	RNF215	0
+s_47777	RNF44	0
+s_47780	RNF6	0
+s_47786	RNF7	0
+s_47791	RNF8	0
+s_47915	RP11-178D12.1	0
+s_47946	RP11-428C6.1	0
+s_47969	RP11-6F2.7	0
+s_47970	RP11-6F2.7	0
+s_48013	RP4-697K14.7	0
+s_48066	RPAP3	0
+s_48073	RPE	0
+s_48097	RPH3AL	0
+s_48098	RPH3AL	0
+s_48179	RPL36	0
+s_48201	RPL6	0
+s_4837	B4GALT5	0
+s_48399	RPUSD2	0
+s_4841	B4GALT6	0
+s_48414	RQCD1	0
+s_4843	B4GALT7	0
+s_48438	RREB1	0
+s_48461	RRNAD1	0
+s_48488	RRS1	0
+s_48512	RSC1A1	0
+s_4868	BACE1	0
+s_48714	RUSC1	0
+s_48860	S100B	0
+s_48874	S100Z	0
+s_48933	SALL3	0
+s_4898	BAG4	0
+s_49069	SASS6	0
+s_49192	SCARB1	0
+s_49246	SCGB1D1	0
+s_4925	BAIAP2	0
+s_49278	SCIN	0
+s_49297	SCML1	0
+s_49354	SCN7A	0
+s_49570	SDR9C7	0
+s_49599	SEC14L2	0
+s_49625	SEC22A	0
+s_49651	SEC24D	0
+s_49668	SEC61A2	0
+s_49706	SELE	0
+s_4972	BARHL2	0
+s_49775	SEMA4F	0
+s_49799	SEMA6D	0
+s_49844	SEPP1	0
+s_49859	12-Sep	0
+s_49881	5-Sep	0
+s_49934	SERINC5	0
+s_49957	SERPINA3	0
+s_50004	SERPINB5	0
+s_5001	BAX	0
+s_5006	BAZ1A	0
+s_50112	SETD3	0
+s_50123	SETD6	0
+s_50127	SETD7	0
+s_50162	SEZ6L2	0
+s_5022	BAZ2B	0
+s_5026	BBC3	0
+s_50280	SGCA	0
+s_50284	SGCB	0
+s_50342	SGPP2	0
+s_50388	SH2D3C	0
+s_50391	SH2D3C	0
+s_50491	SH3KBP1	0
+s_505	ACACB	0
+s_50517	SH3TC2	0
+s_5056	BBS4	0
+s_50560	SHE	0
+s_50596	SHISA6	0
+s_50652	SI	0
+s_50684	SIGLEC1	0
+s_50692	SIGLEC10	0
+s_50693	SIGLEC11	0
+s_50722	SIGLEC9	0
+s_50761	SIPA1	0
+s_50779	SIRPB1	0
+s_50780	SIRPB1	0
+s_51043	SLC15A1	0
+s_51096	SLC16A5	0
+s_51179	SLC1A2	0
+s_51276	SLC22A5	0
+s_51312	SLC24A4	0
+s_51344	SLC25A13	0
+s_51482	SLC25A5	0
+s_51528	SLC26A9	0
+s_51555	SLC28A1	0
+s_51613	SLC2A6	0
+s_51660	SLC30A6	0
+s_51715	SLC35A4	0
+s_51729	SLC35B3	0
+s_51774	SLC35F3	0
+s_51783	SLC35G2	0
+s_51872	SLC39A14	0
+s_51904	SLC39A8	0
+s_52017	SLC4A2	0
+s_52093	SLC5A5	0
+s_52206	SLC7A14	0
+s_52255	SLC8A2	0
+s_52313	SLC9B1	0
+s_52364	SLCO4C1	0
+s_52383	SLFN13	0
+s_52421	SLITRK4	0
+s_52435	SLMO1	0
+s_52485	SMAP1	0
+s_5253	BCO2	0
+s_52574	SMCR8	0
+s_52587	SMG5	0
+s_52601	SMG7	0
+s_52617	SMO	0
+s_52642	SMPD4	0
+s_5268	BDH1	0
+s_52758	SNAPIN	0
+s_52784	SNIP1	0
+s_52787	SNIP1	0
+s_52833	SNRPB2	0
+s_52989	SNX8	0
+s_53	AAK1	0
+s_53048	SON	0
+s_53055	SORBS1	0
+s_53109	SOSTDC1	0
+s_53151	SOX30	0
+s_53153	SOX30	0
+s_53181	SP100	0
+s_53438	SPDYC	0
+s_53476	SPERT	0
+s_53512	SPI1	0
+s_53525	SPIN1	0
+s_53535	SPINK1	0
+s_53555	SPINK6	0
+s_53574	SPINT1	0
+s_53639	SPP1	0
+s_53691	SPRR3	0
+s_53740	SPTA1	0
+s_53830	SREK1	0
+s_53993	SSBP1	0
+s_54019	SSPN	0
+s_54054	SSTR5	0
+s_54078	ST14	0
+s_54092	ST3GAL3	0
+s_54099	ST3GAL3	0
+s_54292	STAT5A	0
+s_54305	STATH	0
+s_54314	STAU2	0
+s_54327	STC2	0
+s_5437	BIN2	0
+s_54380	STK17A	0
+s_54403	STK3	0
+s_54480	STON1	0
+s_54588	STX5	0
+s_54609	STXBP4	0
+s_54639	SUCLG1	0
+s_54645	SUCNR1	0
+s_54679	SULT1B1	0
+s_54684	SULT1C3	0
+s_54704	SULT2B1	0
+s_54758	SUPT4H1	0
+s_54772	SUPV3L1	0
+s_54801	SUSD4	0
+s_54866	SWT1	0
+s_5492	BLOC1S3	0
+s_54942	SYNDIG1	0
+s_5503	BMF	0
+s_55131	SZT2	0
+s_55147	TAAR8	0
+s_55187	TACO1	0
+s_55464	TAS2R8	0
+s_55509	TBC1D10C	0
+s_55520	TBC1D14	0
+s_55528	TBC1D15	0
+s_55577	TBC1D30	0
+s_55709	TBX21	0
+s_55725	TBX5	0
+s_55844	TCF4	0
+s_55845	TCF4	0
+s_55862	TCF7L2	0
+s_55868	TCHH	0
+s_5588	BNIP2	0
+s_55911	TCP10L2	0
+s_55913	TCP11	0
+s_55922	TCP11L2	0
+s_55946	TCTN1	0
+s_56006	TEAD2	0
+s_56014	TEAD4	0
+s_56080	TEN1	0
+s_56099	TERF1	0
+s_56118	TES	0
+s_56167	TEX13B	0
+s_5618	BOK	0
+s_56207	TEX9	0
+s_56284	TFEC	0
+s_56297	TFG	0
+s_56361	TGFBR2	0
+s_56373	TGIF1	0
+s_56415	TGS1	0
+s_56492	THEM4	0
+s_56509	THNSL1	0
+s_5655	BPIFA1	0
+s_56621	TIFA	0
+s_56646	TIMD4	0
+s_56684	TIMM8B	0
+s_56805	TLL1	0
+s_56819	TLR10	0
+s_56826	TLR3	0
+s_56873	TM4SF18	0
+s_57016	TMED10	0
+s_57082	TMEM106C	0
+s_57087	TMEM107	0
+s_57150	TMEM127	0
+s_57173	TMEM132B	0
+s_57181	TMEM132E	0
+s_57189	TMEM134	0
+s_57288	TMEM164	0
+s_57299	TMEM167B	0
+s_57409	TMEM194A	0
+s_57422	TMEM198	0
+s_57429	TMEM2	0
+s_57475	TMEM212	0
+s_57531	TMEM231	0
+s_57568	TMEM245	0
+s_57700	TMEM54	0
+s_57873	TMF1	0
+s_57992	TMUB1	0
+s_58180	TNIP1	0
+s_58211	TNKS2	0
+s_58237	TNNT1	0
+s_58256	TNPO2	0
+s_58259	TNPO3	0
+s_58309	TOM1	0
+s_58485	TP73	0
+s_58503	TPD52	0
+s_58533	TPI1	0
+s_5857	BSPRY	0
+s_58612	TPSG1	0
+s_58633	TRA2B	0
+s_58655	TRAF3	0
+s_58668	TRAF3IP2	0
+s_58690	TRAK1	0
+s_58809	TRIB2	0
+s_58962	TRIM50	0
+s_58968	TRIM52	0
+s_59050	TRIO	0
+s_59107	TRMT1L	0
+s_59133	TRMT61B	0
+s_59160	TROVE2	0
+s_59173	TRPC4	0
+s_59196	TRPM1	0
+s_59204	TRPM3	0
+s_59311	TSEN54	0
+s_59332	TSHB	0
+s_59340	TSHZ2	0
+s_59360	TSNARE1	0
+s_5952	BTG4	0
+s_59539	TTC21A	0
+s_59602	TTC39A	0
+s_59654	TTC9C	0
+s_59717	TTLL6	0
+s_5974	BTN3A1	0
+s_59748	TTYH1	0
+s_59807	TUBB2B	0
+s_59859	TULP1	0
+s_59870	TULP3	0
+s_59955	TXNDC8	0
+s_59983	TXNRD2	0
+s_600	ACE	0
+s_60169	UBE2H	0
+s_60209	UBE2Q2	0
+s_60237	UBE2V2	0
+s_60248	UBE3A	0
+s_60250	UBE3B	0
+s_60373	UBXN6	0
+s_60396	UCKL1	0
+s_60423	UEVLD	0
+s_60438	UFSP1	0
+s_60449	UGDH	0
+s_60517	UGT2A1	0
+s_60542	UGT3A1	0
+s_60603	UMODL1	0
+s_60614	UNC119	0
+s_60649	UNC5B	0
+s_6068	C10orf125	0
+s_6071	C10orf128	0
+s_60753	UQCRC2	0
+s_60780	URM1	0
+s_60839	USP15	0
+s_60851	USP19	0
+s_60925	USP4	0
+s_6100	C10orf53	0
+s_6106	C10orf54	0
+s_61149	VAV2	0
+s_61173	VCAM1	0
+s_61178	VCAN	0
+s_61221	VEPH1	0
+s_61263	VIL1	0
+s_61341	VPS13C	0
+s_61344	VPS13D	0
+s_61367	VPS29	0
+s_61529	VWA5A	0
+s_61531	VWA5A	0
+s_61587	WBP1	0
+s_61595	WBP2	0
+s_61623	WDFY1	0
+s_61640	WDHD1	0
+s_61662	WDR16	0
+s_61695	WDR26	0
+s_61739	WDR44	0
+s_6200	C11orf49	0
+s_62019	WISP1	0
+s_62098	WNT5B	0
+s_62114	WNT8A	0
+s_62171	WTAP	0
+s_62249	XKR3	0
+s_62257	XKR6	0
+s_62275	XPC	0
+s_62320	XRCC4	0
+s_62361	YAE1D1	0
+s_62550	ZBBX	0
+s_62559	ZBED6	0
+s_62567	ZBTB1	0
+s_62624	ZBTB37	0
+s_62657	ZBTB47	0
+s_62759	ZC3H7A	0
+s_62845	ZDHHC11	0
+s_62862	ZDHHC16	0
+s_62881	ZDHHC2	0
+s_6292	C12orf23	0
+s_62975	ZFC3H1	0
+s_63034	ZFP64	0
+s_63104	ZFYVE27	0
+s_63107	ZFYVE27	0
+s_63114	ZFYVE28	0
+s_63217	ZMIZ2	0
+s_63228	ZMYM3	0
+s_63234	ZMYM3	0
+s_6326	C12orf49	0
+s_63302	ZNF132	0
+s_63362	ZNF167	0
+s_63435	ZNF200	0
+s_63487	ZNF223	0
+s_63594	ZNF276	0
+s_636	ACO1	0
+s_63746	ZNF354B	0
+s_63755	ZNF362	0
+s_6376	C12orf74	0
+s_63903	ZNF436	0
+s_63905	ZNF438	0
+s_63923	ZNF442	0
+s_63934	ZNF445	0
+s_63935	ZNF446	0
+s_63964	ZNF469	0
+s_63983	ZNF480	0
+s_6409	C14orf105	0
+s_64137	ZNF554	0
+s_64241	ZNF586	0
+s_6427	C14orf133	0
+s_64356	ZNF639	0
+s_64393	ZNF655	0
+s_64396	ZNF655	0
+s_64419	ZNF668	0
+s_64424	ZNF669	0
+s_64459	ZNF682	0
+s_64479	ZNF688	0
+s_64581	ZNF746	0
+s_64627	ZNF772	0
+s_64638	ZNF776	0
+s_64652	ZNF780A	0
+s_64791	ZNF85	0
+s_64851	ZNRF3	0
+s_64871	ZPBP	0
+s_64878	ZPLD1	0
+s_64898	ZSCAN10	0
+s_64930	ZSCAN30	0
+s_64997	ZYG11A	0
+s_6525	C15orf39	0
+s_6592	C16orf13	0
+s_6639	C16orf62	0
+s_6707	C17orf102	0
+s_6710	C17orf104	0
+s_6728	C17orf112	0
+s_6736	C17orf39	0
+s_6794	C17orf72	0
+s_6814	C17orf80	0
+s_6849	C18orf21	0
+s_6859	C18orf32	0
+s_6862	C18orf34	0
+s_6906	C19orf38	0
+s_7053	C1QTNF7	0
+s_7128	C1orf122	0
+s_7144	C1orf130	0
+s_7162	C1orf144	0
+s_7234	C1orf198	0
+s_7341	C1orf63	0
+s_747	ACSL1	0
+s_76	AARS2	0
+s_7674	C2orf57	0
+s_7681	C2orf62	0
+s_7692	C2orf63	0
+s_77	AARSD1	0
+s_78	AARSD1	0
+s_781	ACSS1	0
+s_786	ACSS2	0
+s_7940	C4orf26	0
+s_7970	C4orf37	0
+s_8000	C4orf52	0
+s_804	ACTB	0
+s_8073	C5orf51	0
+s_8141	C6orf162	0
+s_8227	C7orf10	0
+s_8281	C7orf59	0
+s_8318	C8A	0
+s_8403	C9orf100	0
+s_8470	C9orf24	0
+s_8699	CACNA1G	0
+s_8705	CACNA1I	0
+s_871	ACTR8	0
+s_874	ACTR8	0
+s_8757	CACNG5	0
+s_8797	CADPS	0
+s_8879	CALR	0
+s_8910	CAMK2B	0
+s_893	ACVR1B	0
+s_8930	CAMKK1	0
+s_8954	CAMSAP1	0
+s_9064	CAPRIN1	0
+s_9077	CAPSL	0
+s_9109	CARD17	0
+s_913	ACY1	0
+s_9171	CASD1	0
+s_9196	CASP10	0
+s_9285	CATSPER3	0
+s_9506	CCDC120	0
+s_9507	CCDC121	0
+s_952	ADAM12	0
+s_9584	CCDC149	0
+s_964	ADAM18	0
+s_9646	CCDC170	0
+s_9710	CCDC40	0
+s_9732	CCDC48	0
+s_976	ADAM21	0
+s_9763	CCDC62	0
+s_9868	CCDC89	0
+s_991	ADAM30	0
+s_9925	CCL1	0
+s_9973	CCL26	0
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out.count_multi.txt	Wed Apr 04 11:03:29 2018 -0400
@@ -0,0 +1,2551 @@
+sgRNA	Gene	test1_fastq_gz	test2_fastq_gz
+s_47512	RNF111	1	0
+s_24835	HCFC1R1	1	0
+s_14784	CYP4B1	4	0
+s_51146	SLC18A1	1	0
+s_58960	TRIM5	1	0
+s_48256	RPRD2	1	0
+s_30297	KRTAP5-5	1	0
+s_14555	CYB5B	1	0
+s_39959	PAAF1	1	1
+s_45293	PUF60	1	0
+s_49358	SCN8A	1	1
+s_64995	ZYG11A	1	0
+s_4029	ASTE1	1	0
+s_45554	R3HDML	1	0
+s_34264	MMRN1	1	0
+s_37459	NOL6	1	0
+s_23990	GPX7	1	0
+s_20268	FANCC	1	0
+s_14157	CTLA4	1	0
+s_36773	NEURL4	18	3
+s_18804	ETFB	1	0
+s_782	ACSS1	1	0
+s_18272	ENPP2	1	0
+s_46620	RCN1	1	0
+s_55436	TAS2R3	1	0
+s_57947	TMPRSS2	1	1
+s_6438	C14orf159	1	0
+s_33846	MGST2	1	0
+s_16328	DNAH6	1	0
+s_17875	EIF4G1	1	0
+s_2305	ANAPC11	1	0
+s_2500	ANKRD2	1	0
+s_82	AARSD1	1	0
+s_55329	TAL1	1	0
+s_57926	TMPRSS11E	8	0
+s_38414	NUP98	4	0
+s_50044	SERPINF1	1	0
+s_9257	CASR	1	0
+s_63396	ZNF182	1	0
+s_56478	THBS3	1	0
+s_17191	DYRK1A	1	0
+s_11988	CIR1	1	0
+s_43313	PPARD	1	0
+s_44681	PSMA4	1	0
+s_10387	CD320	1	0
+s_64869	ZPBP	1	0
+s_54385	STK17B	1	0
+s_25423	HIST1H4D	1	0
+s_54172	ST8SIA4	9	0
+s_1161	ADCY10	1	0
+s_29184	KIAA0913	1	0
+s_42977	POLD3	1	0
+s_49449	SCUBE1	1	0
+s_24181	GRM4	1	1
+s_52507	SMARCA5	1	0
+s_28674	KCNJ10	1	0
+s_61074	VAMP2	4	0
+s_3954	ASIC2	1	0
+s_2385	ANK1	1	0
+s_18397	EPDR1	1	0
+s_18377	EPB41L4B	1	0
+s_34580	MRAP2	1	0
+s_48676	RUFY3	10	0
+s_691	ACP1	1	0
+s_30460	LAMP2	1	0
+s_42637	PLRG1	1	0
+s_12695	CNOT6	1	0
+s_33316	MECOM	2	0
+s_35081	MSRB2	1	0
+s_58512	TPD52L2	1	0
+s_19912	FAM22F	1	0
+s_45517	QSOX2	1	0
+s_56705	TINAG	1	0
+s_10946	CDKL5	1	0
+s_57473	TMEM211	2	0
+s_57657	TMEM44	1	0
+s_43200	POT1	1	0
+s_19436	FAM135A	1	0
+s_184	ABCB9	1	0
+s_30171	KRT84	1	0
+s_44758	PSMC3IP	1	0
+s_48313	RPS3	1	0
+s_58142	TNFSF12	6	0
+s_59718	TTLL6	7	0
+s_9725	CCDC43	1	0
+s_5135	BCKDHA	1	0
+s_36539	NDUFC2	1	0
+s_27251	IL27RA	1	0
+s_48939	SAMD10	1	0
+s_27343	IL5RA	1	0
+s_28386	KANK2	1	0
+s_27610	INSRR	1	0
+s_2769	AOC3	2	0
+s_58632	TRA2B	12	0
+s_6674	C16orf86	1	0
+s_22902	GJD4	1	0
+s_48278	RPS15A	1	0
+s_61998	WIPF2	1	0
+s_4937	BAIAP3	2	0
+s_54471	STOML1	2	1
+s_19157	FABP12	1	0
+s_5434	BIN1	2	0
+s_42042	PIP5K1A	1	0
+s_7794	C3orf18	1	0
+s_54846	SVIL	1	0
+s_62273	XPA	1	0
+s_45859	RACGAP1	1	0
+s_53626	SPOCK3	1	0
+s_43295	PPAP2C	7	0
+s_11788	CHRDL1	2	0
+s_50636	SHQ1	1	0
+s_16705	DPF1	1	0
+s_39741	OTOF	1	0
+s_27505	INHBE	1	0
+s_707	ACPL2	1	0
+s_15418	DDX3Y	6	0
+s_56018	TEAD4	1	0
+s_44367	PRR12	1	0
+s_25875	HOXB5	1	0
+s_49360	SCN9A	1	0
+s_16244	DMPK	1	0
+s_3909	ASCC2	1	0
+s_55088	SYT6	1	1
+s_54311	STAU1	1	0
+s_53890	SRP72	1	0
+s_11035	CDX1	1	0
+s_18178	EMR3	2	0
+s_16084	DLD	1	0
+s_47207	RHOBTB1	1	0
+s_40267	PARK2	6	0
+s_43104	POLR3B	1	0
+s_2200	AMDHD2	1	0
+s_12738	CNRIP1	1	0
+s_17842	EIF4A3	1	0
+s_57950	TMPRSS3	1	0
+s_62146	WRN	1	0
+s_11055	CEACAM1	1	0
+s_54580	STX2	1	0
+s_29277	KIAA1407	1	0
+s_33428	MEF2A	1	0
+s_59797	TUBB	1	0
+s_18113	EME1	1	1
+s_29839	KLHL8	1	0
+s_18058	ELP2	1	0
+s_49497	SDCBP2	3	0
+s_16874	DRP2	1	0
+s_13572	CREBL2	1	0
+s_20540	FBXO30	1	0
+s_64380	ZNF646	1	0
+s_50366	SH2B1	1	0
+s_2548	ANKRD33B	1	0
+s_41183	PDXP	1	1
+s_16315	DNAH12	1	0
+s_19996	FAM49B	1	0
+s_30751	LDLRAD3	1	0
+s_36960	NGEF	1	0
+s_39015	OR2A2	1	0
+s_26302	HSPB2	1	0
+s_64297	ZNF611	5	0
+s_730	ACSBG1	1	0
+s_50271	SFXN4	1	0
+s_8592	CA6	2	0
+s_13683	CRMP1	1	0
+s_51103	SLC16A7	1	0
+s_63785	ZNF384	1	0
+s_16339	DNAH9	1	0
+s_55936	TCTEX1D1	1	0
+s_14497	CXorf40A	1	0
+s_1123	ADAT1	1	0
+s_41304	PERP	1	0
+s_18719	ESAM	1	0
+s_35118	MSX2	1	0
+s_30128	KRT6A	1	0
+s_402	ABTB1	1	0
+s_32578	MAP1LC3A	1	0
+s_45063	PTMA	1	2
+s_43551	PPP1R14D	1	0
+s_2538	ANKRD32	1	0
+s_40384	PAX1	1	0
+s_29076	KIAA0101	1	0
+s_40482	PCDH10	1	0
+s_2348	ANGPT2	1	0
+s_59756	TTYH3	1	0
+s_34330	MOB4	1	0
+s_49331	SCN2B	1	0
+s_54905	SYDE1	1	0
+s_39101	OR2T1	1	0
+s_36623	NEDD4L	1	0
+s_40500	PCDH15	2	2
+s_10660	CDC42SE2	1	0
+s_30867	LGALS13	1	0
+s_24322	GSTK1	2	0
+s_59167	TRPC1	1	0
+s_57440	TMEM201	1	0
+s_50539	SHC1	1	0
+s_37087	NIT1	1	0
+s_56345	TGFB2	1	1
+s_55388	TARM1	1	0
+s_1224	ADD2	1	0
+s_5256	BCOR	2	0
+s_51731	SLC35B3	1	1
+s_12987	COL6A6	1	1
+s_56745	TJP3	1	0
+s_19340	FAM120AOS	1	0
+s_53904	SRPR	1	0
+s_1588	AGXT	1	0
+s_46157	RASA3	1	0
+s_19166	FABP3	7	0
+s_22330	GATM	1	0
+s_10731	CDH13	1	0
+s_2329	ANAPC5	1	0
+s_46045	RANGAP1	1	0
+s_54814	SUV39H2	1	0
+s_56169	TEX14	1	0
+s_3433	ARHGEF26	1	0
+s_48032	RP4-811H24.6	1	0
+s_51930	SLC41A3	1	0
+s_63893	ZNF433	1	1
+s_46996	RGCC	1	0
+s_13863	CSF3R	1	0
+s_26337	HSPH1	1	0
+s_12983	COL6A3	1	0
+s_1376	ADSS	1	0
+s_45449	PYHIN1	1	0
+s_49629	SEC22C	1	0
+s_20204	FAM86A	1	0
+s_24920	HDAC9	1	0
+s_14961	DAPK1	1	1
+s_23900	GPR98	2	0
+s_14485	CXorf27	1	0
+s_61808	WDR66	1	2
+s_55855	TCF7	1	0
+s_44652	PSG8	1	0
+s_46608	RCCD1	1	0
+s_61175	VCAM1	1	0
+s_27453	INCA1	1	0
+s_28987	KDM4C	1	0
+s_20613	FBXO7	1	0
+s_7715	C2orf70	3	1
+s_3902	ASB9	1	0
+s_64098	ZNF534	1	0
+s_31108	LIN7B	1	0
+s_3383	ARHGEF1	1	0
+s_7626	C2orf43	1	0
+s_52247	SLC8A1	1	0
+s_54498	STOX1	1	0
+s_12160	CLDN17	1	0
+s_16224	DMD	1	0
+s_41715	PHLDB2	1	0
+s_12197	CLDN7	1	0
+s_51239	SLC22A16	1	0
+s_41286	PEPD	1	0
+s_2367	ANGPTL4	1	0
+s_59289	TSC22D4	1	0
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+s_24343	GSTO2	1	0
+s_32783	MAPKAPK5	1	0
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+s_49065	SASH3	1	0
+s_60466	UGT1A1	1	0
+s_26043	HPSE2	2	0
+s_21199	FLNA	1	0
+s_41054	PDGFRA	1	0
+s_1820	AKNA	1	0
+s_19548	FAM166A	1	0
+s_43967	PRDX5	1	0
+s_51905	SLC39A8	1	0
+s_22723	GGT5	5	0
+s_13242	COX6C	1	0
+s_27668	IP6K1	1	0
+s_64491	ZNF692	1	0
+s_61982	WHSC1L1	2	0
+s_48495	RSAD1	1	0
+s_34351	MOCS3	1	0
+s_12069	CLCA1	3	0
+s_22023	GABRR1	1	0
+s_12812	COASY	2	0
+s_40068	PAIP1	1	0
+s_11513	CGREF1	2	0
+s_32119	LY6K	1	0
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+s_56354	TGFBR1	1	0
+s_3062	APOL2	1	0
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+s_55591	TBC1D7	1	0
+s_14987	DARS2	1	0
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+s_41936	PIK3C2G	1	0
+s_56092	TEP1	1	0
+s_61284	VIT	1	1
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+s_43744	PPP6R3	2	1
+s_48110	RPL10L	1	0
+s_39381	OR5H15	1	0
+s_6827	C17orf90	2	0
+s_8795	CADPS	1	1
+s_55301	TAF9	1	0
+s_25756	HNRNPM	1	0
+s_61177	VCAN	1	0
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+s_55751	TCEA2	1	0
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+s_33669	MEX3A	1	0
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+s_4546	ATPAF1	1	0
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+s_8848	CALHM2	1	0
+s_27039	IL12RB1	1	0
+s_62824	ZCCHC9	1	0
+s_7498	C20orf96	1	1
+s_43406	PPIE	1	0
+s_54925	SYN1	1	2
+s_27284	IL31RA	1	0
+s_63774	ZNF37A	1	0
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+s_63149	ZIC2	1	0
+s_26251	HSP90AB1	1	0
+s_46773	RELL2	1	0
+s_64868	ZP4	1	2
+s_626	ACLY	1	0
+s_40694	PCED1A	1	0
+s_15888	DHTKD1	1	0
+s_53641	SPP1	1	1
+s_21822	FXR1	1	0
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+s_1901	ALAS2	1	0
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+s_43535	PPP1R13B	2	0
+s_15855	DHRS12	1	0
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+s_61205	VDR	1	0
+s_18989	EXOC7	1	0
+s_22294	GATA1	2	0
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+s_47989	RP1L1	1	0
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+s_53387	SPATA6L	1	1
+s_15423	DDX4	1	0
+s_64039	ZNF506	5	0
+s_22276	GAS6	1	0
+s_15373	DDX19B	1	0
+s_4322	ATP2B2	1	0
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+s_55958	TDGF1	1	0
+s_4516	ATP7B	1	1
+s_19128	F8	1	0
+s_40084	PAK1IP1	1	0
+s_29430	KIF20B	1	0
+s_14773	CYP46A1	1	0
+s_19102	F2R	1	0
+s_29306	KIAA1524	2	0
+s_11438	CETN3	1	1
+s_49647	SEC24D	1	0
+s_35891	NAA11	1	0
+s_10770	CDH23	2	1
+s_44838	PSMG2	1	0
+s_22687	GGCT	1	0
+s_14266	CTSW	1	0
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+s_60012	TYRP1	1	0
+s_13190	COTL1	1	0
+s_4721	AZI2	1	0
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+s_31806	LRRC71	1	0
+s_11862	CHRNG	2	0
+s_52893	SNX12	1	0
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+s_3273	ARHGAP22	1	0
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+s_36663	NEK1	1	0
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+s_48582	RTCA	1	0
+s_27173	IL1RL1	1	0
+s_49800	SEMA6D	1	0
+s_18249	ENOPH1	1	0
+s_31609	LRRC10B	1	0
+s_6450	C14orf176	1	0
+s_42314	PLAC1L	1	0
+s_7822	C3orf27	1	0
+s_43695	PPP2R5C	1	0
+s_8939	CAMKV	1	0
+s_58681	TRAF7	1	0
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+s_60046	UAP1	1	0
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+s_12691	CNOT4	1	0
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+s_5507	BMF	1	0
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+s_11095	CEBPB	2	0
+s_59318	TSG101	1	0
+s_35897	NAA16	1	1
+s_11714	CHMP3	1	0
+s_7217	C1orf186	1	0
+s_14282	CTU1	1	0
+s_53137	SOX15	1	0
+s_30977	LHX3	1	0
+s_825	ACTL6A	1	0
+s_33214	MCOLN3	1	0
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+s_41619	PHF12	1	0
+s_13595	CREM	1	0
+s_30523	LARP4	1	0
+s_6229	C11orf68	1	0
+s_17880	EIF4G2	1	0
+s_36676	NEK3	1	0
+s_23667	GPR123	1	0
+s_1296	ADORA1	1	0
+s_18235	ENHO	1	0
+s_20589	FBXO45	1	0
+s_31341	LOX	1	0
+s_20983	FGFR2	1	0
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+s_62014	WIPI2	1	0
+s_2585	ANKRD45	1	0
+s_14161	CTLA4	1	0
+s_63079	ZFYVE1	1	0
+s_7088	C1orf106	1	0
+s_10461	CD55	1	0
+s_24803	HBM	1	0
+s_52929	SNX21	1	0
+s_40041	PAFAH2	1	0
+s_17056	DUSP15	1	0
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+s_28830	KCNQ3	2	0
+s_44745	PSMB9	1	0
+s_16151	DLGAP5	1	1
+s_17799	EIF2S3	1	0
+s_49444	SCTR	1	0
+s_37203	NLGN3	1	0
+s_63798	ZNF385D	1	1
+s_42282	PLA2G4D	1	0
+s_27383	ILF3	1	0
+s_40974	PDE4DIP	1	0
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+s_56910	TM9SF2	1	0
+s_64839	ZNHIT6	2	0
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+s_5332	BEST3	1	0
+s_15793	DGKG	2	0
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+s_1613	AHCYL1	1	0
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+s_17166	DYNC2H1	1	0
+s_37694	NPNT	1	0
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+s_4936	BAIAP3	1	0
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+s_35839	MYRIP	1	0
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+s_64147	ZNF558	1	1
+s_21759	FUCA2	1	0
+s_62347	XYLB	1	0
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+s_19760	FAM198B	1	0
+s_4944	BAMBI	1	0
+s_59471	TSSC1	1	0
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+s_25918	HOXC8	1	0
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+s_29649	KLF5	1	0
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+s_58112	TNFRSF25	1	0
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+s_7306	C1orf49	1	0
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+s_47977	RP11-744I24.1	1	0
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+s_35378	MUC1	1	0
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+s_54797	SUSD3	1	0
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+s_15359	DDX11	1	1
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+s_27486	INHA	1	0
+s_2399	ANK2	1	0
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+s_16482	DNAJC5G	1	0
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+s_5964	BTN1A1	1	0
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+s_45078	PTP4A2	1	0
+s_23628	GPR101	1	0
+s_58510	TPD52L1	1	0
+s_561	ACAT2	1	0
+s_52492	SMAP2	1	0
+s_24039	GRB2	1	0
+s_46264	RASSF4	1	0
+s_39609	ORMDL3	1	0
+s_47343	RIMS4	1	0
+s_56575	THUMPD1	1	0
+s_3261	ARHGAP18	1	0
+s_8148	C6orf165	1	0
+s_17030	DUSP10	1	1
+s_56155	TEX101	1	0
+s_21191	FLI1	1	0
+s_50732	SIK1	1	0
+s_2914	APCDD1	1	0
+s_30717	LDB3	1	0
+s_4702	AXIN1	2	0
+s_21360	FNIP2	1	0
+s_54350	STEAP4	1	0
+s_57227	TMEM14A	2	0
+s_58177	TNIK	1	0
+s_7465	C20orf26	2	0
+s_17327	ECE2	1	0
+s_51639	SLC30A10	1	0
+s_4352	ATP5A1	1	0
+s_18616	ERCC8	1	0
+s_44043	PRIMA1	1	0
+s_36712	NELL2	1	0
+s_61348	VPS16	1	1
+s_2680	ANO4	1	0
+s_30437	LAMB2	1	0
+s_33742	MFSD12	1	0
+s_58796	TRHR	1	0
+s_52365	SLCO5A1	1	0
+s_41281	PEMT	1	0
+s_23427	GON4L	1	0
+s_13427	CPSF3L	1	0
+s_40193	PAPD7	1	0
+s_21543	FPGT	2	0
+s_16722	DPH2	1	0
+s_40078	PAIP2B	1	1
+s_60284	UBL5	1	0
+s_59936	TXNDC15	1	0
+s_31898	LRRTM4	1	0
+s_44833	PSMG1	2	1
+s_19552	FAM166B	1	0
+s_19478	FAM151A	1	0
+s_30185	KRTAP1-3	1	0
+s_61742	WDR45	1	0
+s_7252	C1orf212	1	0
+s_29507	KIF9	1	0
+s_2786	AP1G1	1	0
+s_21222	FLT1	1	0
+s_38408	NUP93	1	1
+s_60875	USP25	1	0
+s_39905	P2RX5	1	0
+s_54470	STOML1	1	0
+s_19064	EYA4	1	0
+s_41060	PDGFRL	1	0
+s_32049	LUC7L	1	0
+s_11837	CHRNA9	1	0
+s_64166	ZNF563	1	0
+s_11211	CENPK	1	0
+s_63097	ZFYVE21	1	0
+s_24757	HAUS4	1	0
+s_4190	ATG7	1	1
+s_48629	RTN4	1	0
+s_22880	GJB3	1	0
+s_44427	PRR7	1	0
+s_464	AC069154.2	1	0
+s_22093	GALC	1	0
+s_55367	TAPBP	1	0
+s_56672	TIMM22	1	0
+s_22286	GAS7	1	0
+s_45341	PVR	1	0
+s_34498	MPL	1	0
+s_60077	UBA7	3	0
+s_44215	PRMT5	1	0
+s_15576	DEFB125	1	0
+s_44098	PRKAR2B	3	0
+s_38270	NUDT19	1	0
+s_12662	CNNM3	1	0
+s_51149	SLC18A2	1	0
+s_42223	PKP4	1	0
+s_31072	LIMK1	1	0
+s_6339	C12orf53	1	0
+s_26400	HTR3E	1	0
+s_43315	PPARD	1	0
+s_28264	JAM3	1	0
+s_33927	MIER1	1	0
+s_11251	CEP104	1	0
+s_33388	MED24	1	0
+s_53844	SRGAP1	1	0
+s_40003	PACSIN2	1	0
+s_5428	BIK	1	0
+s_28459	KAZN	1	0
+s_12578	CNBP	1	0
+s_20731	FCRL3	1	0
+s_41692	PHKB	3	0
+s_13730	CRTC2	1	1
+s_50741	SIKE1	2	0
+s_10340	CD276	1	0
+s_42441	PLD6	1	0
+s_32600	MAP2K1	2	0
+s_21836	FXYD3	5	2
+s_33227	MCTP2	1	0
+s_23930	GPS1	1	0
+s_58948	TRIM46	1	0
+s_23579	GPER	1	0
+s_19158	FABP12	1	0
+s_26003	HPGD	1	0
+s_12701	CNOT7	1	0
+s_41164	PDS5B	1	0
+s_35675	MYLIP	1	0
+s_54071	SSX5	1	0
+s_59652	TTC9C	1	0
+s_35593	MYH10	1	0
+s_28060	ITGB1BP1	1	0
+s_52258	SLC8A3	2	0
+s_52898	SNX14	1	0
+s_25618	HMGCS1	1	0
+s_5068	BBS9	1	0
+s_4389	ATP5J	1	1
+s_49674	SEC62	1	0
+s_10264	CD1D	1	0
+s_20442	FBXL16	1	0
+s_11296	CEP41	1	0
+s_64923	ZSCAN22	1	0
+s_43954	PRDX3	1	1
+s_41735	PHOX2A	1	0
+s_33740	MFSD11	1	0
+s_2779	AP000892.1	1	0
+s_12703	CNOT7	1	0
+s_23338	GNMT	1	0
+s_14454	CXXC1	1	0
+s_49387	SCO1	1	0
+s_9124	CARD8	1	0
+s_42754	PML	2	4
+s_38814	OPRD1	1	0
+s_40024	PADI4	1	0
+s_29225	KIAA1147	1	0
+s_43402	PPID	1	0
+s_58669	TRAF3IP3	1	0
+s_59528	TTC17	1	0
+s_19114	F2RL3	1	0
+s_3339	ARHGAP35	1	0
+s_1522	AGPAT2	1	0
+s_33006	MBD2	1	0
+s_64149	ZNF558	1	0
+s_9791	CCDC69	1	0
+s_51442	SLC25A4	1	0
+s_59174	TRPC4	1	0
+s_37772	NQO2	1	0
+s_28649	KCNH8	1	0
+s_39896	P2RX3	1	0
+s_44644	PSG4	1	0
+s_51440	SLC25A39	1	0
+s_23954	GPSM3	1	0
+s_58911	TRIM36	1	0
+s_20632	FBXW12	1	0
+s_50149	SETMAR	1	0
+s_42606	PLK4	2	0
+s_55148	TAB1	1	0
+s_64628	ZNF772	1	0
+s_10616	CDC34	1	0
+s_38307	NUDT8	1	0
+s_23831	GPR35	1	0
+s_17055	DUSP15	1	0
+s_6922	C19orf44	1	0
+s_42494	PLEKHF2	1	0
+s_2104	ALPK1	1	0
+s_17640	EGFR	1	0
+s_37797	NR1H3	1	0
+s_23299	GNG3	1	0
+s_9517	CCDC125	1	0
+s_7562	C22orf42	1	0
+s_38149	NTNG1	1	0
+s_64633	ZNF774	1	0
+s_34420	MORN3	1	0
+s_56144	TET2	1	0
+s_18093	EMC6	1	0
+s_63835	ZNF410	1	0
+s_35521	MYBPC1	1	0
+s_64601	ZNF75D	1	0
+s_42105	PITX2	1	1
+s_39091	OR2M4	2	0
+s_1765	AKAP13	1	0
+s_6189	C11orf45	1	0
+s_63701	ZNF330	1	0
+s_28136	ITM2A	1	0
+s_56984	TMCO1	1	0
+s_49007	SAMSN1	1	0
+s_33654	METTL7A	2	0
+s_41626	PHF14	1	0
+s_34072	MLF1	1	0
+s_8880	CALR	1	0
+s_8738	CACNB4	1	0
+s_64012	ZNF496	1	0
+s_59206	TRPM3	1	0
+s_3971	ASIC5	1	0
+s_190	ABCC10	1	0
+s_41999	PIM1	1	1
+s_64465	ZNF684	1	0
+s_18728	ESD	1	0
+s_33786	MGA	1	0
+s_39611	OS9	1	0
+s_3484	ARID1B	1	0
+s_1238	ADH4	1	0
+s_53695	SPRTN	1	0
+s_23676	GPR126	1	0
+s_26052	HRAS	1	0
+s_36545	NDUFS1	1	0
+s_63208	ZMAT5	1	0
+s_2908	APC	1	0
+s_15119	DCAF8	1	0
+s_64395	ZNF655	1	0
+s_54556	STUB1	1	0
+s_10027	CCNC	1	0
+s_20178	FAM83C	1	0
+s_38266	NUDT17	1	1
+s_63517	ZNF233	1	0
+s_5435	BIN1	3	0
+s_13322	CPEB3	3	0
+s_19210	FAHD2A	1	0
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+s_38449	NXF1	1	0
+s_44619	PSEN1	1	0
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+s_47908	RP11-173D9.3	1	0
+s_51358	SLC25A18	1	0
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+s_270	ABHD1	1	0
+s_58611	TPSG1	1	0
+s_45665	RAB33A	1	0
+s_35550	MYCL1	1	0
+s_55953	TCTN3	1	0
+s_39190	OR4D5	1	0
+s_64862	ZP2	1	0
+s_48451	RRM2	1	0
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+s_12532	CMTM1	1	0
+s_13958	CSPP1	1	0
+s_61437	VSIG1	1	0
+s_2427	ANKH	1	0
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+s_25248	HHIP	1	0
+s_49666	SEC61A2	2	0
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+s_51267	SLC22A3	2	0
+s_45250	PTPRU	1	0
+s_54454	STMN2	1	0
+s_50448	SH3BP5	1	0
+s_35505	MYB	1	0
+s_34174	MMD2	1	0
+s_43046	POLR1D	1	0
+s_26919	IGSF1	1	0
+s_59350	TSKU	1	0
+s_52462	SMAD3	1	0
+s_44496	PRSS22	1	0
+s_12310	CLIC1	1	0
+s_60920	USP38	1	0
+s_42557	PLEKHO2	1	0
+s_37636	NPEPL1	1	0
+s_56222	TFAP2A	1	1
+s_46417	RBM22	1	0
+s_20477	FBXL6	1	0
+s_30504	LAPTM4A	1	0
+s_49873	4-Sep	1	0
+s_22231	GAPDH	1	0
+s_24866	HCRT	1	0
+s_26084	HRH4	1	0
+s_266	ABCG8	1	0
+s_31387	LPCAT1	1	0
+s_38114	NTF3	1	0
+s_13990	CST11	1	0
+s_24036	GRB14	1	0
+s_50585	SHISA4	1	0
+s_14163	CTNNA1	1	0
+s_1729	AK2	1	0
+s_62985	ZFHX3	1	0
+s_21318	FNBP1L	1	0
+s_13575	CREBRF	1	1
+s_5344	BET1	1	0
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+s_51325	SLC25A1	1	0
+s_34136	MLNR	1	0
+s_31677	LRRC31	1	0
+s_53307	SPARCL1	1	0
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+s_31356	LOXL3	1	0
+s_118	ABCA12	1	0
+s_12481	CLUL1	1	0
+s_40393	PAX3	1	0
+s_39614	OS9	1	0
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+s_1136	ADC	1	0
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+s_4512	ATP7A	1	0
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+s_54497	STOX1	1	0
+s_46754	REG4	1	0
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+s_42213	PKP2	1	0
+s_52161	SLC6A4	1	0
+s_60954	USP48	1	0
+s_14721	CYP2C9	1	0
+s_54067	SSX3	1	0
+s_42512	PLEKHG5	1	0
+s_32324	MAD2L1BP	1	0
+s_26149	HSD11B1L	1	1
+s_62941	ZFAND1	1	0
+s_306	ABHD16A	1	0
+s_42173	PKIG	1	0
+s_33499	MEOX1	1	1
+s_2639	ANKS1A	1	0
+s_9221	CASP4	2	2
+s_60951	USP48	1	0
+s_42487	PLEKHB2	1	0
+s_12463	CLTB	1	0
+s_17140	DYDC2	1	0
+s_15238	DCTD	1	0
+s_32766	MAPK8IP3	1	0
+s_6844	C18orf1	1	0
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+s_58192	TNIP3	1	0
+s_26239	HSF4	1	0
+s_14209	CTRL	1	0
+s_7539	C22orf25	1	0
+s_21263	FMNL3	1	0
+s_56798	TLK1	1	0
+s_30163	KRT80	1	0
+s_28530	KCNAB1	1	0
+s_50079	SESN2	1	0
+s_17622	EGFL7	1	0
+s_27107	IL17RE	1	0
+s_61128	VASH2	1	0
+s_7629	C2orf44	1	0
+s_59045	TRIML2	1	0
+s_53186	SP110	1	0
+s_44696	PSMA8	1	0
+s_4081	ATAT1	1	0
+s_59776	TUBA3C	1	0
+s_26981	IKBKB	1	0
+s_11984	CINP	1	0
+s_38231	NUDT1	1	0
+s_34096	MLKL	1	0
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+s_54159	ST7L	1	0
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+s_38834	OPTC	1	0
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+s_25301	HIGD1C	1	0
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+s_2191	AMBRA1	1	0
+s_64637	ZNF775	1	0
+s_24425	GTF2IRD1	2	0
+s_28025	ITGA7	1	0
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+s_56140	TET1	1	0
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+s_48335	RPS6KA1	1	0
+s_8918	CAMK2N1	1	1
+s_9126	CARD8	1	0
+s_34993	MSC	1	0
+s_62519	YY1AP1	1	0
+s_17754	EIF2B2	1	0
+s_3894	ASB7	1	0
+s_1366	ADRBK2	1	0
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+s_791	ACSS3	1	0
+s_3070	APOL5	1	0
+s_158	ABCB4	1	0
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+s_43731	PPP4R4	1	0
+s_62463	YPEL3	1	1
+s_1351	ADRA2A	1	0
+s_58570	TPPP	1	0
+s_27563	INPP5K	1	0
+s_64662	ZNF783	1	0
+s_43701	PPP2R5D	1	0
+s_41032	PDE9A	1	0
+s_40077	PAIP2B	1	0
+s_55106	SYTL2	1	0
+s_36104	NAT1	1	0
+s_5659	BPIFA2	1	0
+s_24738	HAS3	1	0
+s_23688	GPR135	1	0
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+s_42154	PKDCC	1	0
+s_52320	SLC9B2	1	0
+s_56287	TFF1	1	0
+s_26218	HSDL1	1	0
+s_48811	S100A14	1	0
+s_27403	IMMT	1	0
+s_44547	PRSS50	1	0
+s_13554	CREB3L3	1	0
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+s_9678	CCDC28B	1	0
+s_42982	POLD4	1	0
+s_9038	CAPN3	1	0
+s_24550	GYG1	1	1
+s_7927	C4orf19	1	0
+s_59893	TWF2	1	0
+s_21776	FUS	1	0
+s_38699	OLA1	1	0
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+s_57105	TMEM110	1	0
+s_47396	RIPPLY2	1	0
+s_29679	KLHDC3	1	0
+s_19864	FAM214B	1	0
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+s_63818	ZNF397	1	0
+s_62767	ZC3HAV1	1	0
+s_30390	LAD1	1	0
+s_54683	SULT1C3	1	0
+s_29008	KDM5D	1	0
+s_24721	HARS	1	0
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+s_33598	METTL18	1	0
+s_43299	PPAPDC1B	1	0
+s_23606	GPM6A	1	0
+s_8917	CAMK2G	1	0
+s_7803	C3orf22	1	0
+s_52734	SNAP91	2	0
+s_46558	RBPJL	1	1
+s_44462	PRRT2	1	0
+s_30938	LHB	1	0
+s_33858	MIA2	1	0
+s_1394	AEN	1	0
+s_39870	OXSR1	1	0
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+s_16155	DLK2	1	0
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+s_10518	CD81	1	0
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+s_34638	MRPL1	1	0
+s_612	ACER3	1	0
+s_32740	MAPK3	1	0
+s_16130	DLGAP1	1	1
+s_15564	DEFB119	1	0
+s_41047	PDGFC	1	0
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+s_19702	FAM189B	1	0
+s_16740	DPM3	1	0
+s_13557	CREB3L4	1	0
+s_10008	CCNA1	1	1
+s_58486	TP73	1	0
+s_18717	ESAM	1	0
+s_63612	ZNF280D	1	0
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+s_59449	TSPO2	1	0
+s_42709	PLXNB3	1	0
+s_39221	OR4M2	1	0
+s_49750	SEMA3F	1	0
+s_8476	C9orf3	1	1
+s_45561	RAB11A	1	1
+s_5542	BMP5	1	0
+s_1064	ADAMTS4	1	0
+s_5354	BET3L	1	0
+s_17631	EGFLAM	1	0
+s_36593	NEBL	1	0
+s_6085	C10orf2	1	0
+s_13428	CPSF3L	1	0
+s_25023	HECW1	1	0
+s_3641	ARMC9	1	0
+s_56315	TFPT	1	0
+s_3278	ARHGAP22	1	0
+s_49946	SERPINA1	1	0
+s_20760	FDFT1	1	0
+s_26065	HRCT1	1	0
+s_50473	SH3GL1	1	0
+s_22971	GLI1	1	0
+s_24638	H6PD	1	0
+s_40488	PCDH11X	1	0
+s_61210	VEGFB	1	0
+s_28841	KCNQ5	1	0
+s_43717	PPP3R1	1	0
+s_25342	HIRA	1	0
+s_57951	TMPRSS4	1	0
+s_34011	MITF	1	0
+s_54412	STK32B	1	0
+s_16037	DISC1	1	0
+s_51701	SLC34A3	1	0
+s_54291	STAT4	1	0
+s_24419	GTF2I	1	0
+s_45973	RALB	1	0
+s_28705	KCNJ6	1	0
+s_5581	BNIP1	1	0
+s_19856	FAM213A	1	0
+s_18308	ENTPD1	1	0
+s_59198	TRPM1	1	0
+s_21871	FZD10	1	0
+s_1850	AKR1C4	1	0
+s_6867	C18orf54	1	0
+s_35715	MYO18B	1	0
+s_22242	GAPVD1	1	0
+s_32713	MAP7D3	1	0
+s_49953	SERPINA12	1	0
+s_55916	TCP11	1	0
+s_56174	TEX19	1	0
+s_22072	GAL	1	0
+s_41033	PDE9A	1	1
+s_26471	HYAL3	1	1
+s_60244	UBE2Z	1	0
+s_12589	CNEP1R1	1	0
+s_29896	KLK8	1	0
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+s_39346	OR5AP2	1	0
+s_15213	DCPS	1	0
+s_48577	RTBDN	1	0
+s_32146	LYAR	1	0
+s_26382	HTR3C	1	0
+s_33001	MBD1	1	0
+s_41972	PIK3R2	1	0
+s_33212	MCOLN3	1	0
+s_35423	MUL1	1	0
+s_7838	C3orf35	1	0
+s_51092	SLC16A4	1	0
+s_20336	FASTK	1	0
+s_33469	MEI1	1	0
+s_5549	BMP7	1	0
+s_2490	ANKRD16	1	0
+s_38674	OGFRL1	1	0
+s_26322	HSPBAP1	1	0
+s_31244	LMNA	1	0
+s_34063	MLC1	1	0
+s_15550	DEFB113	1	0
+s_52892	SNX12	1	0
+s_25799	HOOK2	1	0
+s_55486	TAX1BP1	1	1
+s_4351	ATP5A1	1	0
+s_49917	SERHL2	1	0
+s_46614	RCHY1	1	0
+s_62680	ZBTB7B	1	0
+s_49488	SDCBP	1	0
+s_21866	FYTTD1	1	0
+s_23092	GLTPD1	1	0
+s_10675	CDC73	1	0
+s_12764	CNTN2	1	0
+s_9223	CASP5	1	1
+s_38310	NUDT8	1	0
+s_7059	C1QTNF9B	1	0
+s_33162	MCM3AP	1	0
+s_8498	C9orf50	1	0
+s_16876	DSC1	1	0
+s_14370	CWH43	1	0
+s_22565	GDPD1	1	0
+s_4304	ATP1B4	1	0
+s_3600	ARMC10	1	0
+s_18120	EMID1	1	0
+s_21865	FYN	1	0
+s_60042	U2SURP	1	0
+s_13930	CSNK1G3	1	0
+s_6618	C16orf53	1	0
+s_26173	HSD17B12	1	0
+s_46035	RANBP3L	1	0
+s_13167	CORO2A	1	0
+s_10481	CD6	1	0
+s_4563	ATPIF1	1	0
+s_50071	SERTAD4	1	0
+s_39089	OR2M3	1	0
+s_58390	TOR1AIP2	1	0
+s_45132	PTPN2	1	0
+s_34536	MPPED2	1	0
+s_24336	GSTM5	1	0
+s_38670	OGFR	1	0
+s_4606	ATXN3	1	0
+s_5049	BBS12	1	0
+s_28134	ITM2A	1	0
+s_23612	GPN1	1	0
+s_16085	DLEC1	1	0
+s_2525	ANKRD28	1	0
+s_1792	AKAP7	1	0
+s_27701	IPO11	1	0
+s_25633	HMGN5	1	0
+s_33287	MDM4	1	0
+s_17847	EIF4E	1	0
+s_58327	TOMM34	1	0
+s_54101	ST3GAL3	1	0
+s_41507	PGLYRP3	1	0
+s_38705	OLAH	1	0
+s_7336	C1orf61	1	0
+s_34439	MOSPD3	1	0
+s_33343	MED12	1	0
+s_30145	KRT75	1	0
+s_7793	C3orf18	1	0
+s_13874	CSH2	1	1
+s_14274	CTTN	1	0
+s_38166	NTRK2	1	0
+s_2916	APCDD1L	1	0
+s_41582	PHB	1	0
+s_16033	DISC1	1	0
+s_54156	ST7L	1	0
+s_21942	GABARAPL1	1	0
+s_19312	FAM115C	1	0
+s_5431	BIN1	1	0
+s_44378	PRR15	1	0
+s_22113	GALNT1	1	0
+s_11744	CHN1	1	0
+s_13702	CROT	1	0
+s_14052	CT62	1	0
+s_28143	ITM2C	1	0
+s_43456	PPM1B	1	0
+s_1396	AES	1	0
+s_21931	GAB2	1	0
+s_39536	OR8J3	1	0
+s_62622	ZBTB37	1	0
+s_10417	CD3G	1	0
+s_23789	GPR176	1	0
+s_37011	NICN1	1	0
+s_55412	TAS1R2	1	0
+s_36626	NEDD4L	1	0
+s_62812	ZCCHC4	1	0
+s_18097	EMC7	1	0
+s_36145	NAV2	1	0
+s_18994	EXOG	1	0
+s_61047	UTY	1	0
+s_57912	TMPRSS11B	1	0
+s_56577	THUMPD1	1	0
+s_8419	C9orf123	1	0
+s_36127	NAT9	1	0
+s_57557	TMEM240	1	0
+s_36157	NBEA	1	0
+s_16271	DMRTA2	1	0
+s_44643	PSG4	1	0
+s_53557	SPINK8	1	0
+s_36256	NCF4	1	0
+s_46280	RASSF6	1	0
+s_47580	RNF141	1	0
+s_8514	C9orf71	1	0
+s_62629	ZBTB4	1	0
+s_4286	ATP1A3	1	1
+s_36001	NAGK	1	0
+s_38778	OPA3	1	0
+s_8907	CAMK2A	1	0
+s_10448	CD5	1	0
+s_20085	FAM69B	1	0
+s_31389	LPCAT1	1	0
+s_56204	TEX34	1	0
+s_30139	KRT72	1	0
+s_34962	MS4A6A	1	0
+s_12886	COL17A1	1	0
+s_46458	RBM4	1	0
+s_37813	NR1I3	1	0
+s_60438	UFSP1	0	1
+s_63435	ZNF200	0	2
+s_64396	ZNF655	0	1
+s_43862	PRB4	0	1
+s_53525	SPIN1	0	1
+s_50517	SH3TC2	0	1
+s_30311	KRTAP9-3	0	1
+s_22485	GCNT2	0	1
+s_3888	ASB6	0	1
+s_40184	PAPD4	0	1
+s_32073	LUZP1	0	1
+s_6525	C15orf39	0	2
+s_23767	GPR161	0	1
+s_30263	KRTAP26-1	0	1
+s_15363	DDX17	0	1
+s_51344	SLC25A13	0	2
+s_57150	TMEM127	0	1
+s_5006	BAZ1A	0	1
+s_1035	ADAMTS14	0	1
+s_12177	CLDN2	0	1
+s_2968	APLP1	0	1
+s_27202	IL20RB	0	1
+s_31454	LPPR5	0	1
+s_56373	TGIF1	0	1
+s_38212	NUCB2	0	1
+s_35682	MYLK	0	1
+s_11692	CHL1	0	1
+s_45600	RAB15	0	1
+s_45050	PTK2	0	1
+s_43302	PPAPDC1B	0	1
+s_6106	C10orf54	0	1
+s_15965	DIAPH3	0	1
+s_40436	PBOV1	0	1
+s_18809	ETHE1	0	1
+s_19255	FAM104B	0	1
+s_12666	CNNM3	0	1
+s_24320	GSTCD	0	1
+s_53555	SPINK6	0	1
+s_15731	DFFB	0	1
+s_27958	IST1	0	1
+s_964	ADAM18	0	2
+s_53438	SPDYC	0	1
+s_45128	PTPN18	0	1
+s_39135	OR2T8	0	1
+s_16417	DNAJC13	0	1
+s_50127	SETD7	0	1
+s_47970	RP11-6F2.7	0	1
+s_29117	KIAA0284	0	1
+s_41474	PGBD2	0	1
+s_17709	EHMT2	0	1
+s_42616	PLOD1	0	2
+s_48098	RPH3AL	0	1
+s_33131	MCF2	0	1
+s_40137	PAM	0	1
+s_43789	PQLC2	0	1
+s_64930	ZSCAN30	0	1
+s_51904	SLC39A8	0	1
+s_2509	ANKRD23	0	1
+s_52206	SLC7A14	0	1
+s_29841	KLHL8	0	1
+s_41294	PER2	0	1
+s_19006	EXOSC3	0	1
+s_58256	TNPO2	0	1
+s_62361	YAE1D1	0	1
+s_41955	PIK3CD	0	1
+s_55577	TBC1D30	0	1
+s_4898	BAG4	0	1
+s_36143	NAV2	0	1
+s_40521	PCDH7	0	1
+s_38169	NTRK2	0	1
+s_18119	EMID1	0	1
+s_13067	COMT	0	1
+s_1101	ADAMTSL4	0	1
+s_43837	PRAMEF16	0	1
+s_23618	GPN3	0	1
+s_21231	FLT4	0	1
+s_32160	LYL1	0	1
+s_40510	PCDH19	0	1
+s_31587	LRP8	0	1
+s_63034	ZFP64	0	1
+s_41347	PEX19	0	1
+s_6849	C18orf21	0	1
+s_52784	SNIP1	0	1
+s_52587	SMG5	0	1
+s_27324	IL37	0	1
+s_27482	ING4	0	2
+s_44189	PRLR	0	2
+s_15655	DENND4A	0	1
+s_58962	TRIM50	0	1
+s_31344	LOXHD1	0	2
+s_9710	CCDC40	0	1
+s_8227	C7orf10	0	2
+s_51872	SLC39A14	0	1
+s_21627	FRMD8	0	1
+s_54092	ST3GAL3	0	1
+s_59160	TROVE2	0	1
+s_13091	COPG1	0	1
+s_23236	GNAS	0	1
+s_41084	PDIA4	0	1
+s_5437	BIN2	0	1
+s_10405	CD38	0	1
+s_58485	TP73	0	1
+s_26862	IGFBP5	0	1
+s_19747	FAM195B	0	1
+s_57429	TMEM2	0	1
+s_52574	SMCR8	0	1
+s_51555	SLC28A1	0	1
+s_27266	IL2RA	0	1
+s_16867	DRGX	0	1
+s_14425	CXCL6	0	1
+s_61344	VPS13D	0	1
+s_15385	DDX23	0	1
+s_63755	ZNF362	0	1
+s_48073	RPE	0	1
+s_47394	RIPPLY1	0	1
+s_44270	PROM1	0	2
+s_30755	LDLRAP1	0	1
+s_56873	TM4SF18	0	1
+s_35375	MUC1	0	3
+s_1212	ADD1	0	1
+s_32657	MAP3K7	0	1
+s_50692	SIGLEC10	0	1
+s_50779	SIRPB1	0	2
+s_16175	DLX1	0	1
+s_9196	CASP10	0	1
+s_15867	DHRS3	0	1
+s_15800	DGKI	0	2
+s_40392	PAX3	0	1
+s_16577	DNMT3A	0	3
+s_21887	FZD8	0	1
+s_15679	DEPDC1	0	1
+s_35396	MUC21	0	1
+s_35836	MYPOP	0	1
+s_28750	KCNK18	0	1
+s_21895	G0S2	0	1
+s_40936	PDE4A	0	1
+s_50112	SETD3	0	1
+s_62098	WNT5B	0	1
+s_63934	ZNF445	0	1
+s_46657	RDH10	0	2
+s_43629	PPP1R42	0	1
+s_37451	NOL4	0	1
+s_56646	TIMD4	0	1
+s_15017	DBF4	0	1
+s_62845	ZDHHC11	0	1
+s_8797	CADPS	0	5
+s_22741	GH1	0	3
+s_33565	METTL11B	0	1
+s_43354	PPFIA1	0	1
+s_46717	REEP1	0	2
+s_11153	CELF4	0	1
+s_42068	PISD	0	1
+s_24533	GUK1	0	2
+s_36825	NFATC2	0	1
+s_4406	ATP5S	0	1
+s_45113	PTPN12	0	1
+s_41138	PDLIM5	0	1
+s_56167	TEX13B	0	1
+s_45707	RAB3C	0	1
+s_32418	MAGEE2	0	2
+s_14021	CSTA	0	1
+s_33218	MCRS1	0	1
+s_64627	ZNF772	0	1
+s_53535	SPINK1	0	1
+s_52617	SMO	0	1
+s_43542	PPP1R14A	0	1
+s_12120	CLCN7	0	1
+s_28288	JMJD1C	0	2
+s_14439	CXCR4	0	1
+s_52421	SLITRK4	0	1
+s_59311	TSEN54	0	1
+s_40055	PAGE2B	0	1
+s_58211	TNKS2	0	1
+s_17440	EDNRA	0	1
+s_18767	ESRRA	0	1
+s_4224	ATN1	0	1
+s_6639	C16orf62	0	1
+s_15482	DDX6	0	1
+s_47216	RHOC	0	1
+s_5618	BOK	0	1
+s_24664	HADHB	0	1
+s_3145	AQP7	0	1
+s_48066	RPAP3	0	1
+s_33750	MFSD2B	0	1
+s_55844	TCF4	0	1
+s_59859	TULP1	0	1
+s_41807	PIAS1	0	1
+s_20686	FCGR1A	0	1
+s_48512	RSC1A1	0	1
+s_17195	DYRK1B	0	1
+s_42467	PLEKHA5	0	1
+s_37430	NODAL	0	1
+s_4837	B4GALT5	0	1
+s_53055	SORBS1	0	2
+s_34503	MPND	0	1
+s_25337	HIPK4	0	2
+s_32434	MAGI3	0	1
+s_35796	MYOF	0	1
+s_8910	CAMK2B	0	1
+s_49354	SCN7A	0	1
+s_48438	RREB1	0	1
+s_1116	ADARB1	0	2
+s_41772	PHYHIPL	0	1
+s_27183	IL1RN	0	1
+s_54942	SYNDIG1	0	1
+s_21845	FXYD5	0	1
+s_64898	ZSCAN10	0	1
+s_3120	AQP10	0	3
+s_64652	ZNF780A	0	1
+s_20269	FANCC	0	1
+s_30538	LARP7	0	1
+s_58690	TRAK1	0	2
+s_64871	ZPBP	0	1
+s_32	AADACL2	0	1
+s_40016	PADI2	0	1
+s_31415	LPHN3	0	7
+s_27571	INS	0	1
+s_19605	FAM173B	0	1
+s_56415	TGS1	0	1
+s_29897	KLK8	0	1
+s_6427	C14orf133	0	3
+s_34406	MORF4L2	0	1
+s_4972	BARHL2	0	1
+s_51613	SLC2A6	0	1
+s_39500	OR7D4	0	2
+s_40004	PACSIN2	0	1
+s_49570	SDR9C7	0	1
+s_20794	FEM1C	0	1
+s_34529	MPP7	0	2
+s_33192	MCM9	0	3
+s_28004	ITGA3	0	1
+s_17432	EDN2	0	1
+s_50491	SH3KBP1	0	1
+s_15897	DHX16	0	1
+s_3297	ARHGAP26	0	2
+s_55862	TCF7L2	0	1
+s_21736	FTSJ1	0	1
+s_1834	AKR1B10	0	1
+s_28650	KCNIP1	0	1
+s_52017	SLC4A2	0	1
+s_19699	FAM189B	0	1
+s_37048	NIPA1	0	1
+s_27265	IL2RA	0	1
+s_47144	RHAG	0	1
+s_22537	GDF5	0	1
+s_27330	IL4I1	0	1
+s_9925	CCL1	0	1
+s_37151	NKX2-5	0	1
+s_35519	MYBPC1	0	1
+s_10381	CD300LG	0	1
+s_3881	ASB4	0	1
+s_62275	XPC	0	1
+s_44739	PSMB8	0	1
+s_54645	SUCNR1	0	1
+s_60169	UBE2H	0	1
+s_59332	TSHB	0	1
+s_24129	GRIN2D	0	1
+s_40487	PCDH11X	0	1
+s_59717	TTLL6	0	1
+s_19048	EXTL2	0	1
+s_16675	DOPEY1	0	1
+s_40227	PAQR5	0	1
+s_9584	CCDC149	0	1
+s_1609	AHCY	0	1
+s_57016	TMED10	0	1
+s_17959	ELF5	0	1
+s_54292	STAT5A	0	3
+s_2464	ANKRD10	0	1
+s_32012	LTBP1	0	1
+s_26858	IGFBP4	0	1
+s_10582	CDC14B	0	1
+s_5253	BCO2	0	1
+s_63746	ZNF354B	0	1
+s_52758	SNAPIN	0	1
+s_32521	MAN2B1	0	1
+s_58237	TNNT1	0	1
+s_32773	MAPKAP1	0	1
+s_42321	PLAC8L1	0	2
+s_16798	DPYD	0	2
+s_7674	C2orf57	0	1
+s_52313	SLC9B1	0	1
+s_44091	PRKAR1B	0	1
+s_58533	TPI1	0	1
+s_62257	XKR6	0	1
+s_51096	SLC16A5	0	1
+s_13856	CSF3	0	2
+s_60542	UGT3A1	0	1
+s_12121	CLCN7	0	1
+s_36740	NEU1	0	1
+s_62657	ZBTB47	0	2
+s_61173	VCAM1	0	1
+s_18908	EVL	0	1
+s_55709	TBX21	0	1
+s_19254	FAM104A	0	1
+s_32407	MAGEC3	0	1
+s_27828	IRAK2	0	1
+s_42751	PML	0	1
+s_14894	DAB2IP	0	1
+s_5588	BNIP2	0	1
+s_54054	SSTR5	0	1
+s_60209	UBE2Q2	0	2
+s_33476	MEIS2	0	1
+s_4925	BAIAP2	0	1
+s_36282	NCKAP5	0	1
+s_24146	GRIP1	0	1
+s_804	ACTB	0	1
+s_6068	C10orf125	0	1
+s_56819	TLR10	0	2
+s_12576	CNBP	0	1
+s_31007	LIAS	0	1
+s_13123	COQ2	0	1
+s_39747	OTOF	0	1
+s_61341	VPS13C	0	1
+s_61367	VPS29	0	1
+s_14189	CTNND2	0	1
+s_49859	12-Sep	0	1
+s_26290	HSPA8	0	1
+s_54866	SWT1	0	1
+s_11222	CENPM	0	1
+s_60614	UNC119	0	4
+s_14226	CTSC	0	1
+s_12187	CLDN25	0	1
+s_54684	SULT1C3	0	1
+s_3938	ASGR2	0	1
+s_53109	SOSTDC1	0	1
+s_21650	FRS3	0	1
+s_15440	DDX47	0	1
+s_29590	KLC3	0	1
+s_39262	OR51F2	0	1
+s_9868	CCDC89	0	1
+s_9064	CAPRIN1	0	1
+s_35811	MYOM3	0	2
+s_37972	NRSN2	0	1
+s_55520	TBC1D14	0	1
+s_1127	ADAT2	0	1
+s_57288	TMEM164	0	1
+s_57422	TMEM198	0	3
+s_38963	OR1A2	0	1
+s_14467	CXXC5	0	1
+s_40148	PAN2	0	1
+s_16866	DRGX	0	1
+s_61739	WDR44	0	1
+s_38225	NUDCD2	0	1
+s_40261	PARD6B	0	1
+s_52485	SMAP1	0	1
+s_48488	RRS1	0	1
+s_5974	BTN3A1	0	1
+s_40182	PAOX	0	1
+s_46581	RCAN1	0	1
+s_36044	NANS	0	1
+s_31011	LIF	0	1
+s_61640	WDHD1	0	1
+s_6814	C17orf80	0	1
+s_26557	ICT1	0	1
+s_8879	CALR	0	1
+s_18125	EMILIN1	0	1
+s_20635	FBXW2	0	1
+s_60517	UGT2A1	0	2
+s_62559	ZBED6	0	1
+s_35186	MTF1	0	1
+s_62320	XRCC4	0	1
+s_43060	POLR2C	0	1
+s_18739	ESM1	0	3
+s_35923	NAA60	0	1
+s_8930	CAMKK1	0	1
+s_13198	COX11	0	1
+s_42392	PLCH1	0	1
+s_46827	RERGL	0	1
+s_44808	PSMD8	0	1
+s_27580	INSIG1	0	1
+s_8403	C9orf100	0	1
+s_31142	LIPF	0	1
+s_37816	NR2C1	0	1
+s_64241	ZNF586	0	1
+s_4457	ATP6V0E2	0	1
+s_13486	CR2	0	1
+s_17901	EIF5A2	0	1
+s_34151	MLXIPL	0	1
+s_37810	NR1I3	0	3
+s_3141	AQP6	0	1
+s_13857	CSF3	0	1
+s_1550	AGPS	0	1
+s_51783	SLC35G2	0	1
+s_15488	DDX60L	0	1
+s_16745	DPP10	0	1
+s_44361	PRPSAP2	0	1
+s_23683	GPR132	0	1
+s_4209	ATL2	0	1
+s_3146	AQP8	0	1
+s_64581	ZNF746	0	1
+s_34918	MRVI1	0	2
+s_24916	HDAC8	0	1
+s_31550	LRP12	0	1
+s_50560	SHE	0	1
+s_50761	SIPA1	0	2
+s_43253	POU6F2	0	1
+s_1599	AGXT2L1	0	1
+s_56284	TFEC	0	1
+s_33844	MGST1	0	1
+s_12611	CNGB1	0	2
+s_38747	OLR1	0	1
+s_38825	OPRM1	0	1
+s_34294	MNT	0	2
+s_31279	LMOD1	0	1
+s_28463	KAZN	0	1
+s_7341	C1orf63	0	1
+s_3544	ARL16	0	1
+s_42148	PKD2L2	0	1
+s_35281	MTMR7	0	1
+s_35008	MSH4	0	1
+s_441	AC013461.1	0	1
+s_37222	NLRC4	0	1
+s_20946	FGF5	0	1
+s_21281	FMO4	0	1
+s_42351	PLB1	0	1
+s_3841	ASB11	0	1
+s_63935	ZNF446	0	1
+s_44726	PSMB5	0	1
+s_18567	ERBB2IP	0	1
+s_4507	ATP6V1H	0	1
+s_3526	ARL11	0	1
+s_60851	USP19	0	1
+s_11585	CHD1	0	1
+s_15648	DENND2D	0	1
+s_64393	ZNF655	0	1
+s_15052	DBP	0	1
+s_37438	NOL10	0	1
+s_59955	TXNDC8	0	1
+s_32844	6-Mar	0	1
+s_46107	RAPH1	0	1
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+s_56006	TEAD2	0	1
+s_32687	MAP6	0	1
+s_893	ACVR1B	0	1
+s_59360	TSNARE1	0	1
+s_19664	FAM183A	0	1
+s_34715	MRPL33	0	1
+s_46646	RD3	0	1
+s_37579	NOX4	0	1
+s_58809	TRIB2	0	1
+s_62624	ZBTB37	0	1
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+s_1113	ADAR	0	1
+s_14938	DALRD3	0	1
+s_39650	OSBPL3	0	1
+s_53574	SPINT1	0	1
+s_36335	NCR1	0	1
+s_54772	SUPV3L1	0	1
+s_44654	PSG8	0	1
+s_14418	CXCL3	0	1
+s_55464	TAS2R8	0	1
+s_48399	RPUSD2	0	1
+s_913	ACY1	0	1
+s_31805	LRRC71	0	1
+s_5001	BAX	0	1
+s_3317	ARHGAP30	0	1
+s_37868	NR4A3	0	1
+s_30590	LBR	0	1
+s_61178	VCAN	0	1
+s_29591	KLC4	0	1
+s_64356	ZNF639	0	1
+s_59983	TXNRD2	0	1
+s_57475	TMEM212	0	1
+s_5655	BPIFA1	0	1
+s_18849	ETV3	0	1
+s_43527	PPP1R12B	0	1
+s_56080	TEN1	0	2
+s_32594	MAP2	0	1
+s_15939	DHX40	0	1
+s_37655	NPHP1	0	1
+s_39192	OR4D6	0	1
+s_30870	LGALS14	0	2
+s_42366	PLCB2	0	1
+s_52364	SLCO4C1	0	1
+s_38097	NT5DC2	0	1
+s_50596	SHISA6	0	1
+s_5857	BSPRY	0	1
+s_52601	SMG7	0	2
+s_8318	C8A	0	1
+s_16993	DUOX1	0	1
+s_10785	CDH3	0	1
+s_47969	RP11-6F2.7	0	1
+s_10594	CDC20B	0	1
+s_24174	GRM3	0	1
+s_44782	PSMD13	0	1
+s_63594	ZNF276	0	2
+s_13686	CRMP1	0	1
+s_51528	SLC26A9	0	2
+s_27347	IL6R	0	1
+s_11294	CEP41	0	1
+s_41027	PDE8B	0	1
+s_32689	MAP6	0	2
+s_42792	PNCK	0	1
+s_34944	MS4A14	0	1
+s_54480	STON1	0	1
+s_49799	SEMA6D	0	1
+s_42215	PKP3	0	1
+s_27311	IL36G	0	1
+s_11877	CHST13	0	2
+s_43623	PPP1R3F	0	1
+s_38824	OPRM1	0	1
+s_28192	ITSN1	0	1
+s_21104	FIP1L1	0	1
+s_58668	TRAF3IP2	0	1
+s_17459	EEF1D	0	1
+s_1450	AGA	0	1
+s_37258	NLRP3	0	1
+s_30864	LGALS12	0	1
+s_44075	PRKAG2	0	1
+s_19728	FAM193A	0	1
+s_51482	SLC25A5	0	1
+s_61221	VEPH1	0	1
+s_63903	ZNF436	0	1
+s_13290	CPA6	0	1
+s_32131	LY75-CD302	0	1
+s_37502	NOS1	0	1
+s_18145	EML2	0	2
+s_44634	PSG11	0	1
+s_18865	ETV4	0	1
+s_60780	URM1	0	1
+s_37963	NRP2	0	1
+s_49599	SEC14L2	0	1
+s_24936	HDGF	0	1
+s_35013	MSH4	0	1
+s_48860	S100B	0	2
+s_58655	TRAF3	0	1
+s_25157	HESX1	0	1
+s_42544	PLEKHM3	0	1
+s_24430	GTF3C1	0	1
+s_49297	SCML1	0	1
+s_13387	CPO	0	1
+s_55868	TCHH	0	1
+s_6592	C16orf13	0	1
+s_25016	HECTD3	0	1
+s_37084	NIT1	0	1
+s_2729	ANXA11	0	1
+s_600	ACE	0	1
+s_19744	FAM195B	0	1
+s_15563	DEFB119	0	1
+s_46848	RETNLB	0	1
+s_46976	RFXANK	0	1
+s_62881	ZDHHC2	0	1
+s_18600	ERCC4	0	1
+s_56297	TFG	0	1
+s_30446	LAMC1	0	1
+s_2092	ALOX5AP	0	1
+s_63905	ZNF438	0	1
+s_54305	STATH	0	1
+s_64424	ZNF669	0	1
+s_2497	ANKRD18A	0	1
+s_50693	SIGLEC11	0	1
+s_27215	IL22RA1	0	1
+s_21912	G6PC2	0	1
+s_3668	ARNTL2	0	1
+s_64137	ZNF554	0	1
+s_5492	BLOC1S3	0	1
+s_38179	NTSR2	0	1
+s_23343	GNPDA1	0	1
+s_40120	PALM	0	1
+s_38567	OBSL1	0	1
+s_6794	C17orf72	0	1
+s_12522	CMPK2	0	1
+s_27693	IP6K3	0	1
+s_62249	XKR3	0	1
+s_17374	ECT2	0	1
+s_25606	HMGCL	0	1
+s_14107	CTD-2616J11.4	0	1
+s_18531	EPS8L3	0	1
+s_27030	IL12A	0	1
+s_21813	FUZ	0	1
+s_1766	AKAP14	0	1
+s_46068	RAP1GDS1	0	1
+s_56118	TES	0	1
+s_62550	ZBBX	0	1
+s_35964	NACC1	0	1
+s_60449	UGDH	0	1
+s_49668	SEC61A2	0	1
+s_27412	IMPA1	0	1
+s_45961	RAI14	0	1
+s_42305	PLA2R1	0	1
+s_8699	CACNA1G	0	3
+s_44485	PRSS12	0	1
+s_39987	PACRGL	0	1
+s_32700	MAP7	0	1
+s_5056	BBS4	0	1
+s_33958	MINA	0	1
+s_43445	PPM1A	0	1
+s_17811	EIF3E	0	1
+s_12021	CIZ1	0	2
+s_3432	ARHGEF26	0	1
+s_57409	TMEM194A	0	1
+s_31023	LIG4	0	1
+s_49192	SCARB1	0	1
+s_58503	TPD52	0	1
+s_10434	CD44	0	1
+s_18757	ESR2	0	1
+s_9763	CCDC62	0	1
+s_11054	CEACAM1	0	1
+s_42107	PITX3	0	1
+s_10007	CCNA1	0	1
+s_78	AARSD1	0	1
+s_13393	CPOX	0	1
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+s_59748	TTYH1	0	1
+s_20080	FAM65C	0	1
+s_28680	KCNJ13	0	1
+s_48414	RQCD1	0	1
+s_48874	S100Z	0	1
+s_12140	CLDN10	0	1
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+s_21781	FUT10	0	1
+s_16607	DOCK3	0	1
+s_63983	ZNF480	0	1
+s_46452	RBM39	0	1
+s_27604	INSM2	0	1
+s_2238	AMMECR1L	0	2
+s_19736	FAM194A	0	1
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+s_48461	RRNAD1	0	1
+s_63217	ZMIZ2	0	1
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+s_58259	TNPO3	0	1
+s_8757	CACNG5	0	1
+s_22699	GGCX	0	1
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+s_2306	ANAPC11	0	1
+s_47100	RGS3	0	1
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+s_43155	POMT1	0	1
+s_55946	TCTN1	0	1
+s_36703	NELF	0	1
+s_299	ABHD14B	0	1
+s_13338	CPLX3	0	2
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+s_27843	IRF1	0	1
+s_61263	VIL1	0	1
+s_952	ADAM12	0	1
+s_53639	SPP1	0	1
+s_4843	B4GALT7	0	2
+s_30559	LAT	0	1
+s_29140	KIAA0430	0	1
+s_505	ACACB	0	1
+s_4041	ASTN2	0	1
+s_44460	PRRT2	0	1
+s_25380	HIST1H2BC	0	1
+s_3067	APOL3	0	1
+s_58309	TOM1	0	1
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+s_13985	CSRP3	0	1
+s_64997	ZYG11A	0	1
+s_10408	CD3D	0	1
+s_4841	B4GALT6	0	1
+s_21725	FTH1	0	1
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+s_23963	GPT2	0	1
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+s_29561	KISS1	0	1
+s_12015	CITED1	0	1
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+s_27151	IL1R1	0	1
+s_36222	NCAPH2	0	2
+s_2579	ANKRD44	0	1
+s_4523	ATP8A1	0	1
+s_38202	NUBP2	0	1
+s_37863	NR4A2	0	1
+s_18423	EPHA4	0	1
+s_37991	NRXN2	0	1
+s_49706	SELE	0	1
+s_6326	C12orf49	0	1
+s_59173	TRPC4	0	2
+s_47710	RNF215	0	1
+s_40925	PDE2A	0	1
+s_54078	ST14	0	1
+s_31294	LMX1A	0	2
+s_47186	RHD	0	1
+s_6710	C17orf104	0	1
+s_59870	TULP3	0	1
+s_16878	DSC1	0	1
+s_12433	CLRN2	0	1
+s_12923	COL27A1	0	1
+s_5022	BAZ2B	0	1
+s_7144	C1orf130	0	1
+s_10232	CD164	0	1
+s_9973	CCL26	0	1
+s_63302	ZNF132	0	1
+s_55725	TBX5	0	1
+s_15522	DEF8	0	1
+s_14761	CYP3A4	0	1
+s_48097	RPH3AL	0	1
+s_32024	LTBP3	0	1
+s_48714	RUSC1	0	1
+s_22151	GALNT5	0	1
+s_12082	CLCC1	0	1
+s_18772	ESRRB	0	1
+s_40089	PAK2	0	1
+s_2023	ALG3	0	1
+s_20487	FBXO11	0	1
+s_45536	R3HCC1L	0	1
+s_38516	NYX	0	1
+s_9506	CCDC120	0	2
+s_3152	AQP9	0	2
+s_56361	TGFBR2	0	1
+s_21642	FRRS1	0	1
+s_29471	KIF2B	0	1
+s_31854	LRRFIP2	0	1
+s_64459	ZNF682	0	1
+s_59807	TUBB2B	0	1
+s_37091	NIT2	0	1
+s_50162	SEZ6L2	0	1
+s_27111	IL17REL	0	1
+s_40156	PANK1	0	1
+s_45586	RAB11FIP5	0	1
+s_16629	DOCK8	0	1
+s_42663	PLSCR5	0	1
+s_34474	MPHOSPH10	0	1
+s_56805	TLL1	0	1
+s_50004	SERPINB5	0	1
+s_27114	IL18	0	1
+s_46328	RBBP7	0	1
+s_12138	CLDN10	0	1
+s_51043	SLC15A1	0	1
+s_5952	BTG4	0	1
+s_991	ADAM30	0	1
+s_55922	TCP11L2	0	1
+s_10164	CCS	0	1
+s_39654	OSBPL5	0	1
+s_38525	OAS1	0	3
+s_24204	GRP	0	2
+s_40159	PANK2	0	1
+s_20377	FAXC	0	1
+s_34213	MMP2	0	1
+s_1183	ADCY5	0	1
+s_17119	DUT	0	1
+s_61695	WDR26	0	1
+s_15586	DEFB127	0	1
+s_36519	NDUFB5	0	1
+s_42051	PIP5KL1	0	1
+s_12624	CNIH2	0	1
+s_46639	RCSD1	0	1
+s_2539	ANKRD33	0	1
+s_27005	IKZF3	0	1
+s_50280	SGCA	0	1
+s_36351	NCS1	0	1
+s_34226	MMP24	0	1
+s_16149	DLGAP5	0	1
+s_11456	CFH	0	3
+s_1687	AIM1	0	1
+s_38205	NUBPL	0	1
+s_63234	ZMYM3	0	1
+s_13253	COX7A2L	0	1
+s_35478	MXD1	0	1
+s_61595	WBP2	0	1
+s_40606	PCDHB8	0	1
+s_63964	ZNF469	0	1
+s_20130	FAM73A	0	1
+s_31436	LPL	0	1
+s_47584	RNF144A	0	2
+s_60753	UQCRC2	0	1
+s_53181	SP100	0	1
+s_61587	WBP1	0	1
+s_35139	MTA1	0	1
+s_14153	CTIF	0	1
+s_45763	RAB6A	0	1
+s_54099	ST3GAL3	0	1
+s_38431	NUSAP1	0	2
+s_25692	HNF1B	0	1
+s_22608	GEMIN8	0	1
+s_51729	SLC35B3	0	1
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+s_49069	SASS6	0	1
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+s_9507	CCDC121	0	1
+s_59539	TTC21A	0	1
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+s_30738	LDHD	0	1
+s_9077	CAPSL	0	1
+s_61662	WDR16	0	1
+s_14996	DAXX	0	1
+s_12875	COL14A1	0	1
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+s_47946	RP11-428C6.1	0	1
+s_57531	TMEM231	0	1
+s_61531	VWA5A	0	1
+s_9646	CCDC170	0	1
+s_45601	RAB15	0	1
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+s_3650	ARMCX4	0	1
+s_29387	KIF13A	0	1
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+s_44746	PSMB9	0	1
+s_15182	DCLRE1A	0	1
+s_32837	4-Mar	0	1
+s_56509	THNSL1	0	1
+s_35480	MXD3	0	1
+s_31338	LOX	0	1
+s_57087	TMEM107	0	1
+s_55509	TBC1D10C	0	1
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+s_63923	ZNF442	0	1
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+s_37326	NME7	0	1
+s_28215	IYD	0	1
+s_3813	ASAP1	0	1
+s_45296	PUM1	0	1
+s_32315	MACROD2	0	1
+s_57173	TMEM132B	0	1
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+s_16294	DMXL2	0	1
+s_53830	SREK1	0	1
+s_44298	PRPF18	0	1
+s_8141	C6orf162	0	2
+s_17168	DYNC2LI1	0	1
+s_4703	AXIN1	0	1
+s_27760	IQCF1	0	1
+s_747	ACSL1	0	1
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+s_54639	SUCLG1	0	1
+s_38602	ODAM	0	1
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+s_64638	ZNF776	0	1
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+s_18365	EPB41L1	0	2
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+s_42446	PLEC	0	1
+s_338	ABI1	0	1
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+s_62171	WTAP	0	1
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+s_20077	FAM65B	0	1
+s_63114	ZFYVE28	0	1
+s_60237	UBE2V2	0	1
+s_8281	C7orf59	0	1
+s_47554	RNF130	0	1
+s_48013	RP4-697K14.7	0	1
+s_6071	C10orf128	0	1
+s_10200	CCT7	0	1
+s_27995	ITGA11	0	1
+s_2807	AP2A1	0	1
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+s_6100	C10orf53	0	1
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+s_16506	DNALI1	0	1
+s_17224	DZIP1L	0	1
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+s_56684	TIMM8B	0	1
+s_42081	PITPNC1	0	1
+s_6862	C18orf34	0	1
+s_49775	SEMA4F	0	2
+s_7692	C2orf63	0	1
+s_50652	SI	0	1
+s_33885	MICAL3	0	1
+s_28725	KCNK10	0	1
+s_51660	SLC30A6	0	1
+s_31223	LMBRD2	0	1
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+s_20176	FAM83B	0	1
+s_57873	TMF1	0	1
+s_16505	DNALI1	0	1
+s_42055	PIP5KL1	0	1
+s_8073	C5orf51	0	1
+s_45960	RAI14	0	1
+s_62975	ZFC3H1	0	1
+s_4868	BACE1	0	1
+s_2580	ANKRD44	0	1
+s_23423	GOLT1B	0	1
+s_874	ACTR8	0	1
+s_13937	CSNK2A1	0	1
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+s_7053	C1QTNF7	0	1
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+s_42932	PODXL2	0	1
+s_41620	PHF13	0	1
+s_11598	CHD3	0	1
+s_63104	ZFYVE27	0	1
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+s_1357	ADRB1	0	1
+s_25914	HOXC6	0	1
+s_12019	CIZ1	0	1
+s_7940	C4orf26	0	1
+s_32271	LZIC	0	1
+s_29312	KIAA1598	0	1
+s_28510	KCNA10	0	1
+s_61149	VAV2	0	1
+s_11218	CENPL	0	1
+s_31733	LRRC42	0	1
+s_24201	GRN	0	1
+s_60373	UBXN6	0	1
+s_18018	ELOF1	0	1
+s_62019	WISP1	0	1
+s_36286	NCKIPSD	0	1
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+s_59050	TRIO	0	1
+s_13220	COX4I2	0	1
+s_53	AAK1	0	1
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+s_52642	SMPD4	0	1
+s_1992	ALG1	0	1
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Binary file test-data/out.countsummary.pdf has changed
--- a/test-data/out.countsummary.txt	Sat Feb 17 10:41:26 2018 -0500
+++ b/test-data/out.countsummary.txt	Wed Apr 04 11:03:29 2018 -0400
@@ -1,2 +1,2 @@
 File	Label	Reads	Mapped	Percentage	TotalsgRNAs	Zerocounts	GiniIndex	NegSelQC	NegSelQCPval	NegSelQCPvalPermutation	NegSelQCPvalPermutationFDR	NegSelQCGene
-input.gz	sample1	2500	1453	0.5812	2550	1276	0.5267	0	1	1	1	0.0
+input_0.gz	test1_fastq_gz	2500	1453	0.5812	2550	1276	0.5267	0	1	1	1	0.0
Binary file test-data/out.countsummary_multi.pdf has changed
--- a/test-data/out.mle.log.txt	Sat Feb 17 10:41:26 2018 -0500
+++ b/test-data/out.mle.log.txt	Wed Apr 04 11:03:29 2018 -0400
@@ -1,749 +1,57 @@
-INFO  @ Mon, 12 Feb 2018 21:46:26: Parameters: /home/maria/miniconda3/envs/mulled-v1-b1e6893952d2d7e4d51a13d040adcd7bea052bfdc57a24d59056014db875e749/bin/mageck mle -k /tmp/tmpRFR3vr/files/000/dataset_1.dat -d /tmp/tmpRFR3vr/files/000/dataset_2.dat -n output --norm-method median --genes-varmodeling 1000 --permutation-round 10 --adjust-method fdr --threads 1
-INFO  @ Mon, 12 Feb 2018 21:46:27: Cannot parse design matrix as a string; try to parse it as a file name ...
-INFO  @ Mon, 12 Feb 2018 21:46:27: Design matrix:
-INFO  @ Mon, 12 Feb 2018 21:46:27: [[1. 0. 0.]
-INFO  @ Mon, 12 Feb 2018 21:46:27:  [1. 0. 0.]
-INFO  @ Mon, 12 Feb 2018 21:46:27:  [1. 1. 0.]
-INFO  @ Mon, 12 Feb 2018 21:46:27:  [1. 0. 1.]]
-INFO  @ Mon, 12 Feb 2018 21:46:27: Beta labels:baseline,HL60,KBM7
-INFO  @ Mon, 12 Feb 2018 21:46:27: Included samples:HL60.initial,KBM7.initial,HL60.final,KBM7.final
-INFO  @ Mon, 12 Feb 2018 21:46:27: Loaded samples:HL60.initial;KBM7.initial;HL60.final;KBM7.final
-INFO  @ Mon, 12 Feb 2018 21:46:27: Sample index: 0;1;2;3
-INFO  @ Mon, 12 Feb 2018 21:46:27: Loaded 100 genes.
-DEBUG @ Mon, 12 Feb 2018 21:46:27: Initial (total) size factor: 1.6654412961322171 2.025116092944715 0.720025234995028 0.6592307725342162
-DEBUG @ Mon, 12 Feb 2018 21:46:27: Median factor: 1.4705915949061357 1.773663484525946 0.6311218804203026 0.5731039100868989
-INFO  @ Mon, 12 Feb 2018 21:46:27: Final size factor: 1.4705915949061357 1.773663484525946 0.6311218804203026 0.5731039100868989
-INFO  @ Mon, 12 Feb 2018 21:46:27: size factor: 0.6799984465189518,0.5638048078028025,1.5844800046134337,1.744884273862957
-INFO  @ Mon, 12 Feb 2018 21:46:27: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:46:27: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:46:27: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:46:27: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:46:27: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:46:27: Modeling the mean and variance ...
-INFO  @ Mon, 12 Feb 2018 21:46:27: Linear regression: y=-0.902175602829449x+14.539230037913281
-INFO  @ Mon, 12 Feb 2018 21:46:27: Run the algorithm for the second time ...
-WARNING @ Mon, 12 Feb 2018 21:46:27: A1CF: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:27: A1CF: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:28: A1CF: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:28: A1CF: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:29: A1CF: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:29: A1CF: alpha: 0.09
-INFO  @ Mon, 12 Feb 2018 21:46:29: Calculating AAAS (1) ...
-WARNING @ Mon, 12 Feb 2018 21:46:29: AAAS: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:29: AAAS: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:30: AAAS: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:30: AAAS: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:31: AAAS: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:31: AAAS: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:31: AAK1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:31: AAK1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:31: AAK1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:31: AAK1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:32: AAK1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:32: AAK1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:32: AATF: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:32: AATF: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:33: AATF: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:33: AATF: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:33: AATF: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:33: AATF: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:33: AATK: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:33: AATK: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:34: AATK: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:34: AATK: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:35: AATK: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:35: AATK: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:35: ABCB8: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:35: ABCB8: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:36: ABCB8: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:36: ABCB8: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:37: ABCB8: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:37: ABCB8: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:37: ABCC1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:37: ABCC1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:38: ABCC1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:38: ABCC1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:38: ABCC1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:38: ABCC1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:38: ABCF1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:38: ABCF1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:39: ABCF1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:39: ABCF1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:40: ABCF1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:40: ABCF1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:40: ABHD14B: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:40: ABHD14B: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:41: ABHD14B: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:41: ABHD14B: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:42: ABHD14B: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:42: ABHD14B: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:42: ABI1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:42: ABI1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:43: ABI1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:43: ABI1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:44: ABI1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:44: ABI1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:44: ABL1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:44: ABL1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:44: ABL1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:44: ABL1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:45: ABL1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:45: ABL1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:45: ABL2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:45: ABL2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:46: ABL2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:46: ABL2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:47: ABL2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:47: ABL2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:47: ABLIM2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:47: ABLIM2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:48: ABLIM2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:48: ABLIM2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:49: ABLIM2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:49: ABLIM2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:49: ABT1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:49: ABT1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:50: ABT1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:50: ABT1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:50: ABTB1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:50: ABTB1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:51: ABTB1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:51: ABTB1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:52: ABTB1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:52: ABTB1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:52: ACAD11: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:52: ACAD11: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:53: ACAD11: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:53: ACAD11: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:54: ACAD11: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:54: ACAD11: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:54: ACAD9: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:54: ACAD9: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:55: ACAD9: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:55: ACAD9: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:55: ACAD9: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:55: ACAD9: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:56: ACAT2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:56: ACAT2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:56: ACAT2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:56: ACAT2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:57: ACAT2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:57: ACAT2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:57: ACBD6: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:57: ACBD6: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:46:58: ACBD6: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:58: ACBD6: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:46:59: ACBD6: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:46:59: ACBD6: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:46:59: ACD: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:46:59: ACD: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:00: ACD: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:00: ACD: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:00: ACD: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:00: ACD: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:00: ACHE: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:00: ACHE: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:01: ACHE: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:01: ACHE: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:02: ACHE: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:02: ACHE: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:02: ACIN1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:02: ACIN1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:03: ACIN1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:03: ACIN1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:04: ACIN1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:04: ACIN1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:04: ACLY: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:04: ACLY: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:05: ACLY: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:05: ACLY: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:05: ACO2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:05: ACO2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:06: ACO2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:06: ACO2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:07: ACO2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:07: ACO2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:07: ACP1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:07: ACP1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:08: ACP1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:08: ACP1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:08: ACP1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:08: ACP1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:08: ACRC: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:08: ACRC: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:09: ACRC: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:09: ACRC: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:10: ACRC: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:10: ACRC: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:10: ACSL6: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:10: ACSL6: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:11: ACSL6: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:11: ACSL6: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:11: ACSL6: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:11: ACSL6: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:11: ACSS2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:11: ACSS2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:12: ACSS2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:12: ACSS2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:13: ACSS2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:13: ACSS2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:13: ACTL6A: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:13: ACTL6A: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:13: ACTL6A: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:13: ACTL6A: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:14: ACTL6A: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:14: ACTL6A: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:14: ACTL6B: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:14: ACTL6B: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:15: ACTL6B: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:15: ACTL6B: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:16: ACTL6B: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:16: ACTL6B: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:16: ACTL7A: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:16: ACTL7A: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:16: ACTL7A: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:16: ACTL7A: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:17: ACTL7A: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:17: ACTL7A: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:17: ACTN1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:17: ACTN1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:18: ACTN1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:18: ACTN1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:19: ACTN1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:19: ACTN1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:19: ACTN4: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:19: ACTN4: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:19: ACTN4: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:19: ACTN4: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:20: ACTN4: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:20: ACTN4: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:20: ACTR1A: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:20: ACTR1A: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:21: ACTR1A: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:21: ACTR1A: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:22: ACTR1A: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:22: ACTR1A: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:22: ACTR3: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:22: ACTR3: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:22: ACTR3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:22: ACTR3: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:23: ACTR3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:23: ACTR3: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:23: ACTR5: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:23: ACTR5: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:24: ACTR5: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:24: ACTR5: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:25: ACTR5: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:25: ACTR5: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:25: ACTR8: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:25: ACTR8: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:25: ACTR8: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:25: ACTR8: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:26: ACTR8: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:26: ACTR8: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:26: ACTRT3: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:26: ACTRT3: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:27: ACTRT3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:27: ACTRT3: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:28: ACTRT3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:28: ACTRT3: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:28: ACVR1B: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:28: ACVR1B: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:28: ACVR1B: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:28: ACVR1B: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:29: ACVR1B: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:29: ACVR1B: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:29: ACVR1C: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:29: ACVR1C: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:30: ACVR1C: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:30: ACVR1C: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:30: ACVR1C: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:30: ACVR1C: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:30: ACVR1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:30: ACVR1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:31: ACVR1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:31: ACVR1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:32: ACVR1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:32: ACVR1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:32: ACVR2A: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:32: ACVR2A: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:33: ACVR2A: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:33: ACVR2A: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:33: ACVR2A: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:33: ACVR2A: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:33: ACVR2B: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:33: ACVR2B: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:34: ACVR2B: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:34: ACVR2B: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:35: ACVR2B: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:35: ACVR2B: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:35: ACVRL1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:35: ACVRL1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:36: ACVRL1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:36: ACVRL1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:36: ACVRL1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:36: ACVRL1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:36: ADAD1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:36: ADAD1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:37: ADAD1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:37: ADAD1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:38: ADAD1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:38: ADAD1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:38: ADAM10: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:38: ADAM10: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:38: ADAM10: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:38: ADAM10: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:39: ADAM10: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:39: ADAM10: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:39: ADAM12: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:39: ADAM12: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:40: ADAM12: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:40: ADAM12: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:41: ADAM12: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:41: ADAM12: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:41: ADAMTS5: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:41: ADAMTS5: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:41: ADAMTS5: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:41: ADAMTS5: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:42: ADAMTS5: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:42: ADAMTS5: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:42: ADAP1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:42: ADAP1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:43: ADAP1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:43: ADAP1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:44: ADAP1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:44: ADAP1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:44: ADARB1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:44: ADARB1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:44: ADARB1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:44: ADARB1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:45: ADARB1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:45: ADARB1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:45: ADARB2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:45: ADARB2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:46: ADARB2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:46: ADARB2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:47: ADARB2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:47: ADARB2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:47: ADAR: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:47: ADAR: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:48: ADAR: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:48: ADAR: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:48: ADAR: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:48: ADAR: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:48: ADCK1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:48: ADCK1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:49: ADCK1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:49: ADCK1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:50: ADCK1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:50: ADCK1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:50: ADCK2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:50: ADCK2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:51: ADCK2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:51: ADCK2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:51: ADCK2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:51: ADCK2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:51: ADCK3: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:51: ADCK3: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:52: ADCK3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:52: ADCK3: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:53: ADCK3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:53: ADCK3: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:53: ADCK4: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:53: ADCK4: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:54: ADCK4: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:54: ADCK4: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:54: ADCK4: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:54: ADCK4: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:54: ADCK5: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:54: ADCK5: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:55: ADCK5: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:55: ADCK5: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:56: ADCK5: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:56: ADCK5: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:56: ADCY1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:56: ADCY1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:57: ADCY1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:57: ADCY1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:57: ADCY1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:57: ADCY1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:57: ADD1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:57: ADD1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:47:58: ADD1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:58: ADD1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:47:59: ADD1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:47:59: ADD1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:47:59: ADD3: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:47:59: ADD3: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:00: ADD3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:00: ADD3: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:00: ADD3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:00: ADD3: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:00: ADH5: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:00: ADH5: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:01: ADH5: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:01: ADH5: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:02: ADH5: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:02: ADH5: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:02: ADH7: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:02: ADH7: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:03: ADH7: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:03: ADH7: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:04: ADH7: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:04: ADH7: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:04: ADI1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:04: ADI1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:04: ADI1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:04: ADI1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:05: ADI1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:05: ADI1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:06: ADIRF: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:06: ADIRF: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:06: ADIRF: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:06: ADIRF: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:07: ADIRF: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:07: ADIRF: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:07: ADK: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:07: ADK: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:08: ADK: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:08: ADK: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:08: ADK: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:08: ADK: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:09: ADNP2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:09: ADNP2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:09: ADNP2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:09: ADNP2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:10: ADNP2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:10: ADNP2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:10: ADNP: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:10: ADNP: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:11: ADNP: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:11: ADNP: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:12: ADNP: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:12: ADNP: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:12: ADPRHL2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:12: ADPRHL2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:12: ADPRHL2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:12: ADPRHL2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:13: ADPRHL2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:13: ADPRHL2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:13: ADRA1A: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:13: ADRA1A: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:14: ADRA1A: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:14: ADRA1A: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:14: ADRA1A: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:14: ADRA1A: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:14: ADRA1B: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:14: ADRA1B: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:15: ADRA1B: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:15: ADRA1B: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:16: ADRA1B: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:16: ADRA1B: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:16: ADRB1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:16: ADRB1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:17: ADRB1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:17: ADRB1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:18: ADRB1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:18: ADRB1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:18: ADRB2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:18: ADRB2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:19: ADRB2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:19: ADRB2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:20: ADRB2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:20: ADRB2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:20: ADRB3: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:20: ADRB3: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:21: ADRB3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:21: ADRB3: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:21: ADRB3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:21: ADRB3: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:21: ADRBK1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:21: ADRBK1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:22: ADRBK1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:22: ADRBK1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:23: ADRBK1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:23: ADRBK1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:23: ADRBK2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:23: ADRBK2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:24: ADRBK2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:24: ADRBK2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:25: ADRBK2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:25: ADRBK2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:25: ADRM1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:25: ADRM1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:26: ADRM1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:26: ADRM1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:26: ADRM1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:26: ADRM1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:27: AEBP1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:27: AEBP1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:27: AEBP1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:27: AEBP1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:28: AEBP1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:28: AEBP1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:28: AEBP2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:28: AEBP2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:29: AEBP2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:29: AEBP2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:30: AEBP2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:30: AEBP2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:30: AEN: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:30: AEN: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:31: AEN: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:31: AEN: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:31: AEN: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:31: AEN: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:31: AES: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:31: AES: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:32: AES: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:32: AES: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:33: AES: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:33: AES: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:33: AFAP1L2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:33: AFAP1L2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:34: AFAP1L2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:34: AFAP1L2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:34: AFAP1L2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:34: AFAP1L2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:34: AFF1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:34: AFF1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:35: AFF1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:35: AFF1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:36: AFF1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:36: AFF1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:36: AFF2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:36: AFF2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:37: AFF2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:37: AFF2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:37: AFF2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:37: AFF2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:37: AFF3: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:37: AFF3: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:38: AFF3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:38: AFF3: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:39: AFF3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:39: AFF3: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:39: AFF4: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:39: AFF4: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:40: AFF4: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:40: AFF4: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:40: AFF4: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:40: AFF4: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:40: AFMID: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:40: AFMID: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:41: AFMID: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:41: AFMID: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:42: AFMID: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:42: AFMID: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:42: AFTPH: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:42: AFTPH: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:43: AFTPH: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:43: AFTPH: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:43: AFTPH: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:43: AFTPH: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:43: AGAP2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:43: AGAP2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:44: AGAP2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:44: AGAP2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:45: AGAP2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:45: AGAP2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:45: AGAP3: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:45: AGAP3: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:45: AGAP3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:45: AGAP3: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:46: AGAP3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:46: AGAP3: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:46: AGBL5: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:46: AGBL5: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:47: AGBL5: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:47: AGBL5: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:48: AGBL5: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:48: AGBL5: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:48: AGFG1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:48: AGFG1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:48: AGFG1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:48: AGFG1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:49: AGFG1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:49: AGFG1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:50: AGL: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:50: AGL: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:51: AGL: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:51: AGL: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:51: AGPAT3: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:51: AGPAT3: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:52: AGPAT3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:52: AGPAT3: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:52: AGPAT3: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:52: AGPAT3: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:52: AGPAT5: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:52: AGPAT5: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:53: AGPAT5: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:53: AGPAT5: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:54: AGPAT5: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:54: AGPAT5: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:54: AGTPBP1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:54: AGTPBP1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:55: AGTPBP1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:55: AGTPBP1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:55: AGTPBP1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:55: AGTPBP1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:55: AHCTF1: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:55: AHCTF1: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:56: AHCTF1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:56: AHCTF1: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:57: AHCTF1: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:57: AHCTF1: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:57: AHCY: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:57: AHCY: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:58: AHCY: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:58: AHCY: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:48:58: AHCY: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:58: AHCY: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:48:58: AHNAK2: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:48:58: AHNAK2: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:48:59: AHNAK2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:48:59: AHNAK2: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:49:00: AHNAK2: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:49:00: AHNAK2: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:49:01: AHNAK: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:49:01: AHNAK: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:49:01: AHNAK: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:49:01: AHNAK: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:49:02: AHNAK: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:49:02: AHNAK: alpha: 0.09
-WARNING @ Mon, 12 Feb 2018 21:49:02: AHRR: beta value does not converge. Try to increase the value of alpha ..
-WARNING @ Mon, 12 Feb 2018 21:49:02: AHRR: alpha: 0.01
-WARNING @ Mon, 12 Feb 2018 21:49:03: AHRR: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:49:03: AHRR: alpha: 0.03
-WARNING @ Mon, 12 Feb 2018 21:49:04: AHRR: reaches the maximum number of iterations.
-WARNING @ Mon, 12 Feb 2018 21:49:04: AHRR: alpha: 0.09
-INFO  @ Mon, 12 Feb 2018 21:49:04: Permuting groups of gene with 9 sgRNAs per gene. Group progress: 1/2
-INFO  @ Mon, 12 Feb 2018 21:49:04: Start permuting 10 rounds ...
-INFO  @ Mon, 12 Feb 2018 21:49:04: Collecting 999 sgRNAs from 100 genes.
-INFO  @ Mon, 12 Feb 2018 21:49:04: Permuting round 0 ...
-INFO  @ Mon, 12 Feb 2018 21:49:04: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:04: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:04: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:04: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:04: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:04: Permuting round 1 ...
-INFO  @ Mon, 12 Feb 2018 21:49:05: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:05: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:05: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:05: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:05: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:05: Permuting round 2 ...
-INFO  @ Mon, 12 Feb 2018 21:49:05: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:05: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:05: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:06: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:06: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:06: Permuting round 3 ...
-INFO  @ Mon, 12 Feb 2018 21:49:06: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:06: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:06: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:07: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:07: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:07: Permuting round 4 ...
-INFO  @ Mon, 12 Feb 2018 21:49:07: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:07: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:07: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:08: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:08: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:08: Permuting round 5 ...
-INFO  @ Mon, 12 Feb 2018 21:49:08: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:08: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:08: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:09: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:09: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:09: Permuting round 6 ...
-INFO  @ Mon, 12 Feb 2018 21:49:09: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:09: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:09: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:09: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:09: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:10: Permuting round 7 ...
-INFO  @ Mon, 12 Feb 2018 21:49:10: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:10: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:10: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:10: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:10: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:10: Permuting round 8 ...
-INFO  @ Mon, 12 Feb 2018 21:49:10: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:10: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:10: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:11: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:11: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:11: Permuting round 9 ...
-INFO  @ Mon, 12 Feb 2018 21:49:11: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:11: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:11: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:12: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:12: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:12: Assigning p values...
-INFO  @ Mon, 12 Feb 2018 21:49:12: Permuting groups of gene with 10 sgRNAs per gene. Group progress: 2/2
-INFO  @ Mon, 12 Feb 2018 21:49:12: Start permuting 10 rounds ...
-INFO  @ Mon, 12 Feb 2018 21:49:12: Collecting 999 sgRNAs from 100 genes.
-INFO  @ Mon, 12 Feb 2018 21:49:12: Permuting round 0 ...
-INFO  @ Mon, 12 Feb 2018 21:49:12: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:12: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:12: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:13: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:13: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:13: Permuting round 1 ...
-INFO  @ Mon, 12 Feb 2018 21:49:13: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:13: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:13: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:14: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:14: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:14: Permuting round 2 ...
-INFO  @ Mon, 12 Feb 2018 21:49:14: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:14: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:14: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:15: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:15: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:15: Permuting round 3 ...
-INFO  @ Mon, 12 Feb 2018 21:49:15: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:15: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:15: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:16: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:16: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:16: Permuting round 4 ...
-INFO  @ Mon, 12 Feb 2018 21:49:16: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:16: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:16: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:16: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:16: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:17: Permuting round 5 ...
-INFO  @ Mon, 12 Feb 2018 21:49:17: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:17: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:17: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:17: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:17: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:18: Permuting round 6 ...
-INFO  @ Mon, 12 Feb 2018 21:49:18: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:18: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:18: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:19: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:19: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:19: Permuting round 7 ...
-INFO  @ Mon, 12 Feb 2018 21:49:19: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:19: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:19: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:20: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:20: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:20: Permuting round 8 ...
-INFO  @ Mon, 12 Feb 2018 21:49:20: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:20: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:20: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:21: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:21: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:21: Permuting round 9 ...
-INFO  @ Mon, 12 Feb 2018 21:49:21: Thread 0 started.
-INFO  @ Mon, 12 Feb 2018 21:49:21: Thread 0: total 100 instances.
-INFO  @ Mon, 12 Feb 2018 21:49:21: Thread 0: Calculating AAAS (1) ...
-INFO  @ Mon, 12 Feb 2018 21:49:21: Thread 0 completed.
-INFO  @ Mon, 12 Feb 2018 21:49:21: All threads completed.
-INFO  @ Mon, 12 Feb 2018 21:49:22: Assigning p values...
-INFO  @ Mon, 12 Feb 2018 21:49:22: Writing gene results to output.gene_summary.txt
-INFO  @ Mon, 12 Feb 2018 21:49:22: Writing sgRNA results to output.sgrna_summary.txt
+INFO  @ Sun, 25 Mar 2018 22:27:41: Parameters: /Users/doylemaria/miniconda3/envs/mulled-v1-9ee130591ca78526e74a59d8d6dc03cb7db20645470975762936caeac62972dc/bin/mageck mle -k /private/var/folders/zn/m_qvr9zd7tq0wdtsbq255f8xypj_zg/T/tmpELNsjE/files/000/dataset_28.dat -d /private/var/folders/zn/m_qvr9zd7tq0wdtsbq255f8xypj_zg/T/tmpELNsjE/files/000/dataset_29.dat -n output --norm-method median --threads 1
+INFO  @ Sun, 25 Mar 2018 22:27:42: Cannot parse design matrix as a string; try to parse it as a file name ...
+INFO  @ Sun, 25 Mar 2018 22:27:42: Design matrix:
+INFO  @ Sun, 25 Mar 2018 22:27:42: [[1. 0. 0.]
+INFO  @ Sun, 25 Mar 2018 22:27:42:  [1. 0. 0.]
+INFO  @ Sun, 25 Mar 2018 22:27:42:  [1. 1. 0.]
+INFO  @ Sun, 25 Mar 2018 22:27:42:  [1. 0. 1.]]
+INFO  @ Sun, 25 Mar 2018 22:27:42: Beta labels:baseline,HL60,KBM7
+INFO  @ Sun, 25 Mar 2018 22:27:42: Included samples:HL60.initial,KBM7.initial,HL60.final,KBM7.final
+INFO  @ Sun, 25 Mar 2018 22:27:42: Loaded samples:HL60.initial;KBM7.initial;HL60.final;KBM7.final
+INFO  @ Sun, 25 Mar 2018 22:27:42: Sample index: 0;1;2;3
+INFO  @ Sun, 25 Mar 2018 22:27:42: Loaded 100 genes.
+DEBUG @ Sun, 25 Mar 2018 22:27:42: Initial (total) size factor: 1.6654412961322171 2.025116092944715 0.720025234995028 0.6592307725342162
+DEBUG @ Sun, 25 Mar 2018 22:27:42: Median factor: 1.4705915949061357 1.773663484525946 0.6311218804203026 0.5731039100868989
+INFO  @ Sun, 25 Mar 2018 22:27:42: Final size factor: 1.4705915949061357 1.773663484525946 0.6311218804203026 0.5731039100868989
+INFO  @ Sun, 25 Mar 2018 22:27:42: size factor: 0.6799984465189518,0.5638048078028025,1.5844800046134337,1.744884273862957
+INFO  @ Sun, 25 Mar 2018 22:27:42: Thread 0 started.
+INFO  @ Sun, 25 Mar 2018 22:27:42: Thread 0: total 1 instances.
+INFO  @ Sun, 25 Mar 2018 22:27:42: Thread 0 completed.
+INFO  @ Sun, 25 Mar 2018 22:27:42: All threads completed.
+INFO  @ Sun, 25 Mar 2018 22:27:42: Modeling the mean and variance ...
+INFO  @ Sun, 25 Mar 2018 22:27:42: Run the algorithm for the second time ...
+INFO  @ Sun, 25 Mar 2018 22:27:42: Calculating AAAS (1) ...
+INFO  @ Sun, 25 Mar 2018 22:27:43: Permuting groups of gene with 9 sgRNAs per gene. Group progress: 1/2
+INFO  @ Sun, 25 Mar 2018 22:27:43: Start permuting 2 rounds ...
+INFO  @ Sun, 25 Mar 2018 22:27:43: Collecting 999 sgRNAs from 100 genes.
+INFO  @ Sun, 25 Mar 2018 22:27:43: Permuting round 0 ...
+INFO  @ Sun, 25 Mar 2018 22:27:43: Thread 0 started.
+INFO  @ Sun, 25 Mar 2018 22:27:43: Thread 0: total 100 instances.
+INFO  @ Sun, 25 Mar 2018 22:27:43: Thread 0: Calculating AAAS (1) ...
+INFO  @ Sun, 25 Mar 2018 22:27:45: Thread 0 completed.
+INFO  @ Sun, 25 Mar 2018 22:27:45: All threads completed.
+INFO  @ Sun, 25 Mar 2018 22:27:45: Permuting round 1 ...
+INFO  @ Sun, 25 Mar 2018 22:27:45: Thread 0 started.
+INFO  @ Sun, 25 Mar 2018 22:27:45: Thread 0: total 100 instances.
+INFO  @ Sun, 25 Mar 2018 22:27:45: Thread 0: Calculating AAAS (1) ...
+INFO  @ Sun, 25 Mar 2018 22:27:46: Thread 0 completed.
+INFO  @ Sun, 25 Mar 2018 22:27:46: All threads completed.
+INFO  @ Sun, 25 Mar 2018 22:27:46: Assigning p values...
+INFO  @ Sun, 25 Mar 2018 22:27:46: Permuting groups of gene with 10 sgRNAs per gene. Group progress: 2/2
+INFO  @ Sun, 25 Mar 2018 22:27:46: Start permuting 2 rounds ...
+INFO  @ Sun, 25 Mar 2018 22:27:46: Collecting 999 sgRNAs from 100 genes.
+INFO  @ Sun, 25 Mar 2018 22:27:46: Permuting round 0 ...
+INFO  @ Sun, 25 Mar 2018 22:27:47: Thread 0 started.
+INFO  @ Sun, 25 Mar 2018 22:27:47: Thread 0: total 100 instances.
+INFO  @ Sun, 25 Mar 2018 22:27:47: Thread 0: Calculating AAAS (1) ...
+INFO  @ Sun, 25 Mar 2018 22:27:48: Thread 0 completed.
+INFO  @ Sun, 25 Mar 2018 22:27:48: All threads completed.
+INFO  @ Sun, 25 Mar 2018 22:27:49: Permuting round 1 ...
+INFO  @ Sun, 25 Mar 2018 22:27:49: Thread 0 started.
+INFO  @ Sun, 25 Mar 2018 22:27:49: Thread 0: total 100 instances.
+INFO  @ Sun, 25 Mar 2018 22:27:49: Thread 0: Calculating AAAS (1) ...
+INFO  @ Sun, 25 Mar 2018 22:27:50: Thread 0 completed.
+INFO  @ Sun, 25 Mar 2018 22:27:50: All threads completed.
+INFO  @ Sun, 25 Mar 2018 22:27:50: Assigning p values...
+INFO  @ Sun, 25 Mar 2018 22:27:50: Writing gene results to output.gene_summary.txt
+INFO  @ Sun, 25 Mar 2018 22:27:50: Writing sgRNA results to output.sgrna_summary.txt
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out.normcounts.txt	Wed Apr 04 11:03:29 2018 -0400
@@ -0,0 +1,2551 @@
+sgRNA	Gene	test1_fastq_gz
+s_47512	RNF111	2.0
+s_24835	HCFC1R1	2.0
+s_14784	CYP4B1	8.0
+s_51146	SLC18A1	2.0
+s_58960	TRIM5	2.0
+s_48256	RPRD2	2.0
+s_30297	KRTAP5-5	2.0
+s_14555	CYB5B	2.0
+s_39959	PAAF1	2.0
+s_45293	PUF60	2.0
+s_49358	SCN8A	2.0
+s_64995	ZYG11A	2.0
+s_4029	ASTE1	2.0
+s_45554	R3HDML	2.0
+s_34264	MMRN1	2.0
+s_37459	NOL6	2.0
+s_23990	GPX7	2.0
+s_20268	FANCC	2.0
+s_14157	CTLA4	2.0
+s_36773	NEURL4	36.0
+s_18804	ETFB	2.0
+s_782	ACSS1	2.0
+s_18272	ENPP2	2.0
+s_46620	RCN1	2.0
+s_55436	TAS2R3	2.0
+s_57947	TMPRSS2	2.0
+s_6438	C14orf159	2.0
+s_33846	MGST2	2.0
+s_16328	DNAH6	2.0
+s_17875	EIF4G1	2.0
+s_2305	ANAPC11	2.0
+s_2500	ANKRD2	2.0
+s_82	AARSD1	2.0
+s_55329	TAL1	2.0
+s_57926	TMPRSS11E	16.0
+s_38414	NUP98	8.0
+s_50044	SERPINF1	2.0
+s_9257	CASR	2.0
+s_63396	ZNF182	2.0
+s_56478	THBS3	2.0
+s_17191	DYRK1A	2.0
+s_11988	CIR1	2.0
+s_43313	PPARD	2.0
+s_44681	PSMA4	2.0
+s_10387	CD320	2.0
+s_64869	ZPBP	2.0
+s_54385	STK17B	2.0
+s_25423	HIST1H4D	2.0
+s_54172	ST8SIA4	18.0
+s_1161	ADCY10	2.0
+s_29184	KIAA0913	2.0
+s_42977	POLD3	2.0
+s_49449	SCUBE1	2.0
+s_24181	GRM4	2.0
+s_52507	SMARCA5	2.0
+s_28674	KCNJ10	2.0
+s_61074	VAMP2	8.0
+s_3954	ASIC2	2.0
+s_2385	ANK1	2.0
+s_18397	EPDR1	2.0
+s_18377	EPB41L4B	2.0
+s_34580	MRAP2	2.0
+s_48676	RUFY3	20.0
+s_691	ACP1	2.0
+s_30460	LAMP2	2.0
+s_42637	PLRG1	2.0
+s_12695	CNOT6	2.0
+s_33316	MECOM	4.0
+s_35081	MSRB2	2.0
+s_58512	TPD52L2	2.0
+s_19912	FAM22F	2.0
+s_45517	QSOX2	2.0
+s_56705	TINAG	2.0
+s_10946	CDKL5	2.0
+s_57473	TMEM211	4.0
+s_57657	TMEM44	2.0
+s_43200	POT1	2.0
+s_19436	FAM135A	2.0
+s_184	ABCB9	2.0
+s_30171	KRT84	2.0
+s_44758	PSMC3IP	2.0
+s_48313	RPS3	2.0
+s_58142	TNFSF12	12.0
+s_59718	TTLL6	14.0
+s_9725	CCDC43	2.0
+s_5135	BCKDHA	2.0
+s_36539	NDUFC2	2.0
+s_27251	IL27RA	2.0
+s_48939	SAMD10	2.0
+s_27343	IL5RA	2.0
+s_28386	KANK2	2.0
+s_27610	INSRR	2.0
+s_2769	AOC3	4.0
+s_58632	TRA2B	24.0
+s_6674	C16orf86	2.0
+s_22902	GJD4	2.0
+s_48278	RPS15A	2.0
+s_61998	WIPF2	2.0
+s_4937	BAIAP3	4.0
+s_54471	STOML1	4.0
+s_19157	FABP12	2.0
+s_5434	BIN1	4.0
+s_42042	PIP5K1A	2.0
+s_7794	C3orf18	2.0
+s_54846	SVIL	2.0
+s_62273	XPA	2.0
+s_45859	RACGAP1	2.0
+s_53626	SPOCK3	2.0
+s_43295	PPAP2C	14.0
+s_11788	CHRDL1	4.0
+s_50636	SHQ1	2.0
+s_16705	DPF1	2.0
+s_39741	OTOF	2.0
+s_27505	INHBE	2.0
+s_707	ACPL2	2.0
+s_15418	DDX3Y	12.0
+s_56018	TEAD4	2.0
+s_44367	PRR12	2.0
+s_25875	HOXB5	2.0
+s_49360	SCN9A	2.0
+s_16244	DMPK	2.0
+s_3909	ASCC2	2.0
+s_55088	SYT6	2.0
+s_54311	STAU1	2.0
+s_53890	SRP72	2.0
+s_11035	CDX1	2.0
+s_18178	EMR3	4.0
+s_16084	DLD	2.0
+s_47207	RHOBTB1	2.0
+s_40267	PARK2	12.0
+s_43104	POLR3B	2.0
+s_2200	AMDHD2	2.0
+s_12738	CNRIP1	2.0
+s_17842	EIF4A3	2.0
+s_57950	TMPRSS3	2.0
+s_62146	WRN	2.0
+s_11055	CEACAM1	2.0
+s_54580	STX2	2.0
+s_29277	KIAA1407	2.0
+s_33428	MEF2A	2.0
+s_59797	TUBB	2.0
+s_18113	EME1	2.0
+s_29839	KLHL8	2.0
+s_18058	ELP2	2.0
+s_49497	SDCBP2	6.0
+s_16874	DRP2	2.0
+s_13572	CREBL2	2.0
+s_20540	FBXO30	2.0
+s_64380	ZNF646	2.0
+s_50366	SH2B1	2.0
+s_2548	ANKRD33B	2.0
+s_41183	PDXP	2.0
+s_16315	DNAH12	2.0
+s_19996	FAM49B	2.0
+s_30751	LDLRAD3	2.0
+s_36960	NGEF	2.0
+s_39015	OR2A2	2.0
+s_26302	HSPB2	2.0
+s_64297	ZNF611	10.0
+s_730	ACSBG1	2.0
+s_50271	SFXN4	2.0
+s_8592	CA6	4.0
+s_13683	CRMP1	2.0
+s_51103	SLC16A7	2.0
+s_63785	ZNF384	2.0
+s_16339	DNAH9	2.0
+s_55936	TCTEX1D1	2.0
+s_14497	CXorf40A	2.0
+s_1123	ADAT1	2.0
+s_41304	PERP	2.0
+s_18719	ESAM	2.0
+s_35118	MSX2	2.0
+s_30128	KRT6A	2.0
+s_402	ABTB1	2.0
+s_32578	MAP1LC3A	2.0
+s_45063	PTMA	2.0
+s_43551	PPP1R14D	2.0
+s_2538	ANKRD32	2.0
+s_40384	PAX1	2.0
+s_29076	KIAA0101	2.0
+s_40482	PCDH10	2.0
+s_2348	ANGPT2	2.0
+s_59756	TTYH3	2.0
+s_34330	MOB4	2.0
+s_49331	SCN2B	2.0
+s_54905	SYDE1	2.0
+s_39101	OR2T1	2.0
+s_36623	NEDD4L	2.0
+s_40500	PCDH15	4.0
+s_10660	CDC42SE2	2.0
+s_30867	LGALS13	2.0
+s_24322	GSTK1	4.0
+s_59167	TRPC1	2.0
+s_57440	TMEM201	2.0
+s_50539	SHC1	2.0
+s_37087	NIT1	2.0
+s_56345	TGFB2	2.0
+s_55388	TARM1	2.0
+s_1224	ADD2	2.0
+s_5256	BCOR	4.0
+s_51731	SLC35B3	2.0
+s_12987	COL6A6	2.0
+s_56745	TJP3	2.0
+s_19340	FAM120AOS	2.0
+s_53904	SRPR	2.0
+s_1588	AGXT	2.0
+s_46157	RASA3	2.0
+s_19166	FABP3	14.0
+s_22330	GATM	2.0
+s_10731	CDH13	2.0
+s_2329	ANAPC5	2.0
+s_46045	RANGAP1	2.0
+s_54814	SUV39H2	2.0
+s_56169	TEX14	2.0
+s_3433	ARHGEF26	2.0
+s_48032	RP4-811H24.6	2.0
+s_51930	SLC41A3	2.0
+s_63893	ZNF433	2.0
+s_46996	RGCC	2.0
+s_13863	CSF3R	2.0
+s_26337	HSPH1	2.0
+s_12983	COL6A3	2.0
+s_1376	ADSS	2.0
+s_45449	PYHIN1	2.0
+s_49629	SEC22C	2.0
+s_20204	FAM86A	2.0
+s_24920	HDAC9	2.0
+s_14961	DAPK1	2.0
+s_23900	GPR98	4.0
+s_14485	CXorf27	2.0
+s_61808	WDR66	2.0
+s_55855	TCF7	2.0
+s_44652	PSG8	2.0
+s_46608	RCCD1	2.0
+s_61175	VCAM1	2.0
+s_27453	INCA1	2.0
+s_28987	KDM4C	2.0
+s_20613	FBXO7	2.0
+s_7715	C2orf70	6.0
+s_3902	ASB9	2.0
+s_64098	ZNF534	2.0
+s_31108	LIN7B	2.0
+s_3383	ARHGEF1	2.0
+s_7626	C2orf43	2.0
+s_52247	SLC8A1	2.0
+s_54498	STOX1	2.0
+s_12160	CLDN17	2.0
+s_16224	DMD	2.0
+s_41715	PHLDB2	2.0
+s_12197	CLDN7	2.0
+s_51239	SLC22A16	2.0
+s_41286	PEPD	2.0
+s_2367	ANGPTL4	2.0
+s_59289	TSC22D4	2.0
+s_22437	GCFC2	2.0
+s_24343	GSTO2	2.0
+s_32783	MAPKAPK5	2.0
+s_37032	NINJ1	2.0
+s_49065	SASH3	2.0
+s_60466	UGT1A1	2.0
+s_26043	HPSE2	4.0
+s_21199	FLNA	2.0
+s_41054	PDGFRA	2.0
+s_1820	AKNA	2.0
+s_19548	FAM166A	2.0
+s_43967	PRDX5	2.0
+s_51905	SLC39A8	2.0
+s_22723	GGT5	10.0
+s_13242	COX6C	2.0
+s_27668	IP6K1	2.0
+s_64491	ZNF692	2.0
+s_61982	WHSC1L1	4.0
+s_48495	RSAD1	2.0
+s_34351	MOCS3	2.0
+s_12069	CLCA1	6.0
+s_22023	GABRR1	2.0
+s_12812	COASY	4.0
+s_40068	PAIP1	2.0
+s_11513	CGREF1	4.0
+s_32119	LY6K	2.0
+s_60743	UQCR11	2.0
+s_56354	TGFBR1	2.0
+s_3062	APOL2	2.0
+s_20525	FBXO25	2.0
+s_55591	TBC1D7	2.0
+s_14987	DARS2	2.0
+s_63195	ZMAT2	2.0
+s_41936	PIK3C2G	2.0
+s_56092	TEP1	2.0
+s_61284	VIT	2.0
+s_10035	CCND2	2.0
+s_43744	PPP6R3	4.0
+s_48110	RPL10L	2.0
+s_39381	OR5H15	2.0
+s_6827	C17orf90	4.0
+s_8795	CADPS	2.0
+s_55301	TAF9	2.0
+s_25756	HNRNPM	2.0
+s_61177	VCAN	2.0
+s_22932	GLB1	2.0
+s_55751	TCEA2	2.0
+s_39419	OR5T3	2.0
+s_33669	MEX3A	2.0
+s_42714	PLXNC1	2.0
+s_23239	GNAT1	2.0
+s_4546	ATPAF1	2.0
+s_64432	ZNF671	2.0
+s_31346	LOXHD1	2.0
+s_46353	RBFOX2	2.0
+s_8848	CALHM2	2.0
+s_27039	IL12RB1	2.0
+s_62824	ZCCHC9	2.0
+s_7498	C20orf96	2.0
+s_43406	PPIE	2.0
+s_54925	SYN1	2.0
+s_27284	IL31RA	2.0
+s_63774	ZNF37A	2.0
+s_43643	PPP1R8	2.0
+s_63149	ZIC2	2.0
+s_26251	HSP90AB1	2.0
+s_46773	RELL2	2.0
+s_64868	ZP4	2.0
+s_626	ACLY	2.0
+s_40694	PCED1A	2.0
+s_15888	DHTKD1	2.0
+s_53641	SPP1	2.0
+s_21822	FXR1	2.0
+s_53660	SPR	2.0
+s_29906	KLKB1	2.0
+s_1901	ALAS2	2.0
+s_45130	PTPN2	2.0
+s_43535	PPP1R13B	4.0
+s_15855	DHRS12	2.0
+s_13602	CRH	2.0
+s_51848	SLC39A1	2.0
+s_61205	VDR	2.0
+s_18989	EXOC7	2.0
+s_22294	GATA1	4.0
+s_34584	MRAS	2.0
+s_33140	MCFD2	2.0
+s_34546	MPST	2.0
+s_27208	IL21R	2.0
+s_14576	CYB5R4	2.0
+s_43745	PPP6R3	2.0
+s_41675	PHF8	2.0
+s_41243	PEBP4	4.0
+s_42685	PLXNA1	2.0
+s_41585	PHB2	2.0
+s_47989	RP1L1	2.0
+s_42300	PLA2G6	2.0
+s_53387	SPATA6L	2.0
+s_15423	DDX4	2.0
+s_64039	ZNF506	10.0
+s_22276	GAS6	2.0
+s_15373	DDX19B	2.0
+s_4322	ATP2B2	2.0
+s_25787	HOMER1	2.0
+s_10739	CDH16	2.0
+s_51702	SLC34A3	2.0
+s_20623	FBXO9	4.0
+s_13244	COX6C	2.0
+s_35367	MTX2	2.0
+s_5681	BPIFB6	2.0
+s_57337	TMEM176A	2.0
+s_43464	PPM1F	2.0
+s_20530	FBXO28	2.0
+s_55958	TDGF1	2.0
+s_4516	ATP7B	2.0
+s_19128	F8	2.0
+s_40084	PAK1IP1	2.0
+s_29430	KIF20B	2.0
+s_14773	CYP46A1	2.0
+s_19102	F2R	2.0
+s_29306	KIAA1524	4.0
+s_11438	CETN3	2.0
+s_49647	SEC24D	2.0
+s_35891	NAA11	2.0
+s_10770	CDH23	4.0
+s_44838	PSMG2	2.0
+s_22687	GGCT	2.0
+s_14266	CTSW	2.0
+s_38451	NXF3	2.0
+s_60012	TYRP1	2.0
+s_13190	COTL1	2.0
+s_4721	AZI2	2.0
+s_28800	KCNMB3	2.0
+s_23136	GM2A	2.0
+s_31806	LRRC71	2.0
+s_11862	CHRNG	4.0
+s_52893	SNX12	2.0
+s_31960	LSM5	2.0
+s_3273	ARHGAP22	2.0
+s_22140	GALNT2	2.0
+s_36663	NEK1	2.0
+s_45974	RALB	2.0
+s_48582	RTCA	2.0
+s_27173	IL1RL1	2.0
+s_49800	SEMA6D	2.0
+s_18249	ENOPH1	2.0
+s_31609	LRRC10B	2.0
+s_6450	C14orf176	2.0
+s_42314	PLAC1L	2.0
+s_7822	C3orf27	2.0
+s_43695	PPP2R5C	2.0
+s_8939	CAMKV	2.0
+s_58681	TRAF7	2.0
+s_12850	COG6	2.0
+s_20936	FGF3	2.0
+s_10862	CDK17	2.0
+s_60046	UAP1	2.0
+s_42295	PLA2G5	2.0
+s_52045	SLC4A9	2.0
+s_18532	EPS8L3	2.0
+s_15737	DFNB31	2.0
+s_12691	CNOT4	2.0
+s_27651	INTS7	2.0
+s_52454	SLX4	2.0
+s_5507	BMF	2.0
+s_57583	TMEM25	2.0
+s_36267	NCK2	2.0
+s_15361	DDX17	2.0
+s_24303	GSS	2.0
+s_11095	CEBPB	4.0
+s_59318	TSG101	2.0
+s_35897	NAA16	2.0
+s_11714	CHMP3	2.0
+s_7217	C1orf186	2.0
+s_14282	CTU1	2.0
+s_53137	SOX15	2.0
+s_30977	LHX3	2.0
+s_825	ACTL6A	2.0
+s_33214	MCOLN3	2.0
+s_57706	TMEM55B	2.0
+s_41619	PHF12	2.0
+s_13595	CREM	2.0
+s_30523	LARP4	2.0
+s_6229	C11orf68	2.0
+s_17880	EIF4G2	2.0
+s_36676	NEK3	2.0
+s_23667	GPR123	2.0
+s_1296	ADORA1	2.0
+s_18235	ENHO	2.0
+s_20589	FBXO45	2.0
+s_31341	LOX	2.0
+s_20983	FGFR2	2.0
+s_44192	PRLR	2.0
+s_62014	WIPI2	2.0
+s_2585	ANKRD45	2.0
+s_14161	CTLA4	2.0
+s_63079	ZFYVE1	2.0
+s_7088	C1orf106	2.0
+s_10461	CD55	2.0
+s_24803	HBM	2.0
+s_52929	SNX21	2.0
+s_40041	PAFAH2	2.0
+s_17056	DUSP15	2.0
+s_61656	WDR12	2.0
+s_28830	KCNQ3	4.0
+s_44745	PSMB9	2.0
+s_16151	DLGAP5	2.0
+s_17799	EIF2S3	2.0
+s_49444	SCTR	2.0
+s_37203	NLGN3	2.0
+s_63798	ZNF385D	2.0
+s_42282	PLA2G4D	2.0
+s_27383	ILF3	2.0
+s_40974	PDE4DIP	2.0
+s_55037	SYT1	2.0
+s_52560	SMC6	2.0
+s_56910	TM9SF2	2.0
+s_64839	ZNHIT6	4.0
+s_20818	FES	2.0
+s_16789	DPY19L3	2.0
+s_46072	RAP2A	2.0
+s_24369	GTDC1	2.0
+s_5332	BEST3	2.0
+s_15793	DGKG	4.0
+s_13197	COX11	2.0
+s_1613	AHCYL1	2.0
+s_62445	YLPM1	2.0
+s_5441	BIN3	2.0
+s_20572	FBXO41	2.0
+s_26507	IBSP	2.0
+s_17166	DYNC2H1	2.0
+s_37694	NPNT	2.0
+s_62561	ZBP1	2.0
+s_28074	ITGB3BP	2.0
+s_13046	COMMD4	2.0
+s_4936	BAIAP3	2.0
+s_16345	DNAI1	4.0
+s_60141	UBE2D4	2.0
+s_34569	MPZL3	2.0
+s_35839	MYRIP	2.0
+s_42840	PNN	2.0
+s_64147	ZNF558	2.0
+s_21759	FUCA2	2.0
+s_62347	XYLB	2.0
+s_41049	PDGFD	2.0
+s_19760	FAM198B	2.0
+s_4944	BAMBI	2.0
+s_59471	TSSC1	2.0
+s_60224	UBE2T	2.0
+s_62753	ZC3H6	2.0
+s_29129	KIAA0355	2.0
+s_43266	PPA2	2.0
+s_48165	RPL31	2.0
+s_25918	HOXC8	2.0
+s_61309	VMO1	2.0
+s_29649	KLF5	2.0
+s_3093	APP	2.0
+s_59201	TRPM2	4.0
+s_31154	LIPH	2.0
+s_43571	PPP1R17	2.0
+s_58112	TNFRSF25	2.0
+s_22767	GHRL	2.0
+s_59817	TUBB6	2.0
+s_63192	ZMAT1	2.0
+s_7306	C1orf49	2.0
+s_37585	NOX5	2.0
+s_57817	TMEM87B	2.0
+s_3667	ARNTL2	2.0
+s_14264	CTSS	2.0
+s_61283	VIT	2.0
+s_35482	MXD3	4.0
+s_54197	STAC2	2.0
+s_54806	SUSD5	2.0
+s_22238	GAPT	2.0
+s_62113	WNT8A	2.0
+s_54543	STRN4	2.0
+s_33235	MDC1	2.0
+s_63489	ZNF224	2.0
+s_37914	NRG1	2.0
+s_36452	NDUFA3	2.0
+s_12262	CLEC3B	2.0
+s_25	AAAS	2.0
+s_50339	SGPP2	2.0
+s_30706	LDB1	2.0
+s_49357	SCN8A	2.0
+s_33618	METTL21D	2.0
+s_4402	ATP5O	2.0
+s_55017	SYNRG	2.0
+s_51299	SLC23A3	2.0
+s_34572	MR1	4.0
+s_49259	SCGB3A1	2.0
+s_17794	EIF2S1	2.0
+s_47977	RP11-744I24.1	2.0
+s_32701	MAP7	2.0
+s_32432	MAGI3	2.0
+s_36564	NDUFS6	2.0
+s_11527	CHAC1	2.0
+s_56181	TEX22	2.0
+s_714	ACPT	2.0
+s_51144	SLC18A1	2.0
+s_57122	TMEM117	2.0
+s_28872	KCTD1	2.0
+s_63600	ZNF28	2.0
+s_57369	TMEM182	2.0
+s_60388	UCK1	2.0
+s_47188	RHEB	2.0
+s_15237	DCTD	2.0
+s_42694	PLXNA4	2.0
+s_19680	FAM187B	2.0
+s_35378	MUC1	2.0
+s_38682	OGG1	2.0
+s_1085	ADAMTS9	2.0
+s_40910	PDE1A	2.0
+s_27956	ISOC2	2.0
+s_27821	IRAK1	2.0
+s_16210	DMBT1	2.0
+s_63398	ZNF184	2.0
+s_18679	ERMP1	2.0
+s_9161	CASC1	4.0
+s_45196	PTPRF	2.0
+s_23002	GLIS2	2.0
+s_17310	EBP	2.0
+s_54797	SUSD3	2.0
+s_1528	AGPAT4	2.0
+s_7045	C1QTNF6	2.0
+s_22952	GLCE	2.0
+s_7105	C1orf111	2.0
+s_36537	NDUFC1	2.0
+s_15359	DDX11	2.0
+s_32881	MARK3	2.0
+s_27486	INHA	2.0
+s_2399	ANK2	2.0
+s_60825	USP10	2.0
+s_20838	FEZ2	2.0
+s_43974	PREB	2.0
+s_16482	DNAJC5G	2.0
+s_26334	HSPG2	2.0
+s_46175	RASD1	2.0
+s_26764	IFT20	2.0
+s_14739	CYP2J2	2.0
+s_11386	CERS2	2.0
+s_5964	BTN1A1	2.0
+s_16810	DPYSL3	2.0
+s_16136	DLGAP2	2.0
+s_13401	CPPED1	2.0
+s_22359	GBGT1	2.0
+s_49575	SDSL	2.0
+s_62067	WNT16	2.0
+s_61863	WDR83OS	2.0
+s_44742	PSMB8	4.0
+s_31855	LRRFIP2	2.0
+s_528	ACADM	2.0
+s_13073	COPA	2.0
+s_32741	MAPK3	2.0
+s_38779	OPA3	2.0
+s_34827	MRPS17	2.0
+s_16969	DTX1	2.0
+s_56448	THAP4	2.0
+s_906	ACVR2A	2.0
+s_45078	PTP4A2	2.0
+s_23628	GPR101	2.0
+s_58510	TPD52L1	2.0
+s_561	ACAT2	2.0
+s_52492	SMAP2	2.0
+s_24039	GRB2	2.0
+s_46264	RASSF4	2.0
+s_39609	ORMDL3	2.0
+s_47343	RIMS4	2.0
+s_56575	THUMPD1	2.0
+s_3261	ARHGAP18	2.0
+s_8148	C6orf165	2.0
+s_17030	DUSP10	2.0
+s_56155	TEX101	2.0
+s_21191	FLI1	2.0
+s_50732	SIK1	2.0
+s_2914	APCDD1	2.0
+s_30717	LDB3	2.0
+s_4702	AXIN1	4.0
+s_21360	FNIP2	2.0
+s_54350	STEAP4	2.0
+s_57227	TMEM14A	4.0
+s_58177	TNIK	2.0
+s_7465	C20orf26	4.0
+s_17327	ECE2	2.0
+s_51639	SLC30A10	2.0
+s_4352	ATP5A1	2.0
+s_18616	ERCC8	2.0
+s_44043	PRIMA1	2.0
+s_36712	NELL2	2.0
+s_61348	VPS16	2.0
+s_2680	ANO4	2.0
+s_30437	LAMB2	2.0
+s_33742	MFSD12	2.0
+s_58796	TRHR	2.0
+s_52365	SLCO5A1	2.0
+s_41281	PEMT	2.0
+s_23427	GON4L	2.0
+s_13427	CPSF3L	2.0
+s_40193	PAPD7	2.0
+s_21543	FPGT	4.0
+s_16722	DPH2	2.0
+s_40078	PAIP2B	2.0
+s_60284	UBL5	2.0
+s_59936	TXNDC15	2.0
+s_31898	LRRTM4	2.0
+s_44833	PSMG1	4.0
+s_19552	FAM166B	2.0
+s_19478	FAM151A	2.0
+s_30185	KRTAP1-3	2.0
+s_61742	WDR45	2.0
+s_7252	C1orf212	2.0
+s_29507	KIF9	2.0
+s_2786	AP1G1	2.0
+s_21222	FLT1	2.0
+s_38408	NUP93	2.0
+s_60875	USP25	2.0
+s_39905	P2RX5	2.0
+s_54470	STOML1	2.0
+s_19064	EYA4	2.0
+s_41060	PDGFRL	2.0
+s_32049	LUC7L	2.0
+s_11837	CHRNA9	2.0
+s_64166	ZNF563	2.0
+s_11211	CENPK	2.0
+s_63097	ZFYVE21	2.0
+s_24757	HAUS4	2.0
+s_4190	ATG7	2.0
+s_48629	RTN4	2.0
+s_22880	GJB3	2.0
+s_44427	PRR7	2.0
+s_464	AC069154.2	2.0
+s_22093	GALC	2.0
+s_55367	TAPBP	2.0
+s_56672	TIMM22	2.0
+s_22286	GAS7	2.0
+s_45341	PVR	2.0
+s_34498	MPL	2.0
+s_60077	UBA7	6.0
+s_44215	PRMT5	2.0
+s_15576	DEFB125	2.0
+s_44098	PRKAR2B	6.0
+s_38270	NUDT19	2.0
+s_12662	CNNM3	2.0
+s_51149	SLC18A2	2.0
+s_42223	PKP4	2.0
+s_31072	LIMK1	2.0
+s_6339	C12orf53	2.0
+s_26400	HTR3E	2.0
+s_43315	PPARD	2.0
+s_28264	JAM3	2.0
+s_33927	MIER1	2.0
+s_11251	CEP104	2.0
+s_33388	MED24	2.0
+s_53844	SRGAP1	2.0
+s_40003	PACSIN2	2.0
+s_5428	BIK	2.0
+s_28459	KAZN	2.0
+s_12578	CNBP	2.0
+s_20731	FCRL3	2.0
+s_41692	PHKB	6.0
+s_13730	CRTC2	2.0
+s_50741	SIKE1	4.0
+s_10340	CD276	2.0
+s_42441	PLD6	2.0
+s_32600	MAP2K1	4.0
+s_21836	FXYD3	10.0
+s_33227	MCTP2	2.0
+s_23930	GPS1	2.0
+s_58948	TRIM46	2.0
+s_23579	GPER	2.0
+s_19158	FABP12	2.0
+s_26003	HPGD	2.0
+s_12701	CNOT7	2.0
+s_41164	PDS5B	2.0
+s_35675	MYLIP	2.0
+s_54071	SSX5	2.0
+s_59652	TTC9C	2.0
+s_35593	MYH10	2.0
+s_28060	ITGB1BP1	2.0
+s_52258	SLC8A3	4.0
+s_52898	SNX14	2.0
+s_25618	HMGCS1	2.0
+s_5068	BBS9	2.0
+s_4389	ATP5J	2.0
+s_49674	SEC62	2.0
+s_10264	CD1D	2.0
+s_20442	FBXL16	2.0
+s_11296	CEP41	2.0
+s_64923	ZSCAN22	2.0
+s_43954	PRDX3	2.0
+s_41735	PHOX2A	2.0
+s_33740	MFSD11	2.0
+s_2779	AP000892.1	2.0
+s_12703	CNOT7	2.0
+s_23338	GNMT	2.0
+s_14454	CXXC1	2.0
+s_49387	SCO1	2.0
+s_9124	CARD8	2.0
+s_42754	PML	4.0
+s_38814	OPRD1	2.0
+s_40024	PADI4	2.0
+s_29225	KIAA1147	2.0
+s_43402	PPID	2.0
+s_58669	TRAF3IP3	2.0
+s_59528	TTC17	2.0
+s_19114	F2RL3	2.0
+s_3339	ARHGAP35	2.0
+s_1522	AGPAT2	2.0
+s_33006	MBD2	2.0
+s_64149	ZNF558	2.0
+s_9791	CCDC69	2.0
+s_51442	SLC25A4	2.0
+s_59174	TRPC4	2.0
+s_37772	NQO2	2.0
+s_28649	KCNH8	2.0
+s_39896	P2RX3	2.0
+s_44644	PSG4	2.0
+s_51440	SLC25A39	2.0
+s_23954	GPSM3	2.0
+s_58911	TRIM36	2.0
+s_20632	FBXW12	2.0
+s_50149	SETMAR	2.0
+s_42606	PLK4	4.0
+s_55148	TAB1	2.0
+s_64628	ZNF772	2.0
+s_10616	CDC34	2.0
+s_38307	NUDT8	2.0
+s_23831	GPR35	2.0
+s_17055	DUSP15	2.0
+s_6922	C19orf44	2.0
+s_42494	PLEKHF2	2.0
+s_2104	ALPK1	2.0
+s_17640	EGFR	2.0
+s_37797	NR1H3	2.0
+s_23299	GNG3	2.0
+s_9517	CCDC125	2.0
+s_7562	C22orf42	2.0
+s_38149	NTNG1	2.0
+s_64633	ZNF774	2.0
+s_34420	MORN3	2.0
+s_56144	TET2	2.0
+s_18093	EMC6	2.0
+s_63835	ZNF410	2.0
+s_35521	MYBPC1	2.0
+s_64601	ZNF75D	2.0
+s_42105	PITX2	2.0
+s_39091	OR2M4	4.0
+s_1765	AKAP13	2.0
+s_6189	C11orf45	2.0
+s_63701	ZNF330	2.0
+s_28136	ITM2A	2.0
+s_56984	TMCO1	2.0
+s_49007	SAMSN1	2.0
+s_33654	METTL7A	4.0
+s_41626	PHF14	2.0
+s_34072	MLF1	2.0
+s_8880	CALR	2.0
+s_8738	CACNB4	2.0
+s_64012	ZNF496	2.0
+s_59206	TRPM3	2.0
+s_3971	ASIC5	2.0
+s_190	ABCC10	2.0
+s_41999	PIM1	2.0
+s_64465	ZNF684	2.0
+s_18728	ESD	2.0
+s_33786	MGA	2.0
+s_39611	OS9	2.0
+s_3484	ARID1B	2.0
+s_1238	ADH4	2.0
+s_53695	SPRTN	2.0
+s_23676	GPR126	2.0
+s_26052	HRAS	2.0
+s_36545	NDUFS1	2.0
+s_63208	ZMAT5	2.0
+s_2908	APC	2.0
+s_15119	DCAF8	2.0
+s_64395	ZNF655	2.0
+s_54556	STUB1	2.0
+s_10027	CCNC	2.0
+s_20178	FAM83C	2.0
+s_38266	NUDT17	2.0
+s_63517	ZNF233	2.0
+s_5435	BIN1	6.0
+s_13322	CPEB3	6.0
+s_19210	FAHD2A	2.0
+s_28276	JDP2	2.0
+s_38449	NXF1	2.0
+s_44619	PSEN1	2.0
+s_49290	SCMH1	2.0
+s_63232	ZMYM3	2.0
+s_47908	RP11-173D9.3	2.0
+s_51358	SLC25A18	2.0
+s_42513	PLEKHG5	2.0
+s_270	ABHD1	2.0
+s_58611	TPSG1	2.0
+s_45665	RAB33A	2.0
+s_35550	MYCL1	2.0
+s_55953	TCTN3	2.0
+s_39190	OR4D5	2.0
+s_64862	ZP2	2.0
+s_48451	RRM2	2.0
+s_44136	PRKCZ	2.0
+s_12532	CMTM1	2.0
+s_13958	CSPP1	2.0
+s_61437	VSIG1	2.0
+s_2427	ANKH	2.0
+s_48236	RPP25	2.0
+s_25248	HHIP	2.0
+s_49666	SEC61A2	4.0
+s_40916	PDE1C	2.0
+s_51267	SLC22A3	4.0
+s_45250	PTPRU	2.0
+s_54454	STMN2	2.0
+s_50448	SH3BP5	2.0
+s_35505	MYB	2.0
+s_34174	MMD2	2.0
+s_43046	POLR1D	2.0
+s_26919	IGSF1	2.0
+s_59350	TSKU	2.0
+s_52462	SMAD3	2.0
+s_44496	PRSS22	2.0
+s_12310	CLIC1	2.0
+s_60920	USP38	2.0
+s_42557	PLEKHO2	2.0
+s_37636	NPEPL1	2.0
+s_56222	TFAP2A	2.0
+s_46417	RBM22	2.0
+s_20477	FBXL6	2.0
+s_30504	LAPTM4A	2.0
+s_49873	4-Sep	2.0
+s_22231	GAPDH	2.0
+s_24866	HCRT	2.0
+s_26084	HRH4	2.0
+s_266	ABCG8	2.0
+s_31387	LPCAT1	2.0
+s_38114	NTF3	2.0
+s_13990	CST11	2.0
+s_24036	GRB14	2.0
+s_50585	SHISA4	2.0
+s_14163	CTNNA1	2.0
+s_1729	AK2	2.0
+s_62985	ZFHX3	2.0
+s_21318	FNBP1L	2.0
+s_13575	CREBRF	2.0
+s_5344	BET1	2.0
+s_49424	SCRN2	2.0
+s_31170	LIPN	2.0
+s_54781	SURF2	2.0
+s_51325	SLC25A1	2.0
+s_34136	MLNR	2.0
+s_31677	LRRC31	2.0
+s_53307	SPARCL1	2.0
+s_28022	ITGA7	2.0
+s_31356	LOXL3	2.0
+s_118	ABCA12	2.0
+s_12481	CLUL1	2.0
+s_40393	PAX3	2.0
+s_39614	OS9	2.0
+s_22342	GBA2	2.0
+s_1136	ADC	2.0
+s_10401	CD37	2.0
+s_4512	ATP7A	2.0
+s_10615	CDC27	2.0
+s_54497	STOX1	2.0
+s_46754	REG4	2.0
+s_20299	FAP	2.0
+s_63316	ZNF138	2.0
+s_42213	PKP2	2.0
+s_52161	SLC6A4	2.0
+s_60954	USP48	2.0
+s_14721	CYP2C9	2.0
+s_54067	SSX3	2.0
+s_42512	PLEKHG5	2.0
+s_32324	MAD2L1BP	2.0
+s_26149	HSD11B1L	2.0
+s_62941	ZFAND1	2.0
+s_306	ABHD16A	2.0
+s_42173	PKIG	2.0
+s_33499	MEOX1	2.0
+s_2639	ANKS1A	2.0
+s_9221	CASP4	4.0
+s_60951	USP48	2.0
+s_42487	PLEKHB2	2.0
+s_12463	CLTB	2.0
+s_17140	DYDC2	2.0
+s_15238	DCTD	2.0
+s_32766	MAPK8IP3	2.0
+s_6844	C18orf1	2.0
+s_29768	KLHL25	2.0
+s_58192	TNIP3	2.0
+s_26239	HSF4	2.0
+s_14209	CTRL	2.0
+s_7539	C22orf25	2.0
+s_21263	FMNL3	2.0
+s_56798	TLK1	2.0
+s_30163	KRT80	2.0
+s_28530	KCNAB1	2.0
+s_50079	SESN2	2.0
+s_17622	EGFL7	2.0
+s_27107	IL17RE	2.0
+s_61128	VASH2	2.0
+s_7629	C2orf44	2.0
+s_59045	TRIML2	2.0
+s_53186	SP110	2.0
+s_44696	PSMA8	2.0
+s_4081	ATAT1	2.0
+s_59776	TUBA3C	2.0
+s_26981	IKBKB	2.0
+s_11984	CINP	2.0
+s_38231	NUDT1	2.0
+s_34096	MLKL	2.0
+s_39703	OSM	2.0
+s_44761	PSMC4	2.0
+s_29844	KLK1	2.0
+s_46470	RBM43	2.0
+s_21735	FTSJ1	2.0
+s_54159	ST7L	2.0
+s_29161	KIAA0586	2.0
+s_62066	WNT11	2.0
+s_32768	MAPK9	2.0
+s_38834	OPTC	2.0
+s_27041	IL12RB2	2.0
+s_25301	HIGD1C	2.0
+s_48626	RTN4	2.0
+s_2191	AMBRA1	2.0
+s_64637	ZNF775	2.0
+s_24425	GTF2IRD1	4.0
+s_28025	ITGA7	2.0
+s_21739	FTSJ2	2.0
+s_56140	TET1	2.0
+s_18340	EOGT	2.0
+s_48335	RPS6KA1	2.0
+s_8918	CAMK2N1	2.0
+s_9126	CARD8	2.0
+s_34993	MSC	2.0
+s_62519	YY1AP1	2.0
+s_17754	EIF2B2	2.0
+s_3894	ASB7	2.0
+s_1366	ADRBK2	2.0
+s_63368	ZNF169	2.0
+s_33217	MCRS1	2.0
+s_791	ACSS3	2.0
+s_3070	APOL5	2.0
+s_158	ABCB4	2.0
+s_46169	RASAL2	2.0
+s_31573	LRP3	2.0
+s_15806	DGKQ	2.0
+s_3426	ARHGEF2	2.0
+s_22505	GDAP2	2.0
+s_43731	PPP4R4	2.0
+s_62463	YPEL3	2.0
+s_1351	ADRA2A	2.0
+s_58570	TPPP	2.0
+s_27563	INPP5K	2.0
+s_64662	ZNF783	2.0
+s_43701	PPP2R5D	2.0
+s_41032	PDE9A	2.0
+s_40077	PAIP2B	2.0
+s_55106	SYTL2	2.0
+s_36104	NAT1	2.0
+s_5659	BPIFA2	2.0
+s_24738	HAS3	2.0
+s_23688	GPR135	2.0
+s_44125	PRKCI	2.0
+s_42154	PKDCC	2.0
+s_52320	SLC9B2	2.0
+s_56287	TFF1	2.0
+s_26218	HSDL1	2.0
+s_48811	S100A14	2.0
+s_27403	IMMT	2.0
+s_44547	PRSS50	2.0
+s_13554	CREB3L3	2.0
+s_52812	SNRNP35	2.0
+s_9678	CCDC28B	2.0
+s_42982	POLD4	2.0
+s_9038	CAPN3	2.0
+s_24550	GYG1	2.0
+s_7927	C4orf19	2.0
+s_59893	TWF2	2.0
+s_21776	FUS	2.0
+s_38699	OLA1	2.0
+s_15466	DDX54	2.0
+s_57105	TMEM110	2.0
+s_47396	RIPPLY2	2.0
+s_29679	KLHDC3	2.0
+s_19864	FAM214B	2.0
+s_22859	GIT2	2.0
+s_63818	ZNF397	2.0
+s_62767	ZC3HAV1	2.0
+s_30390	LAD1	2.0
+s_54683	SULT1C3	2.0
+s_29008	KDM5D	2.0
+s_24721	HARS	2.0
+s_19875	FAM217A	2.0
+s_33598	METTL18	2.0
+s_43299	PPAPDC1B	2.0
+s_23606	GPM6A	2.0
+s_8917	CAMK2G	2.0
+s_7803	C3orf22	2.0
+s_52734	SNAP91	4.0
+s_46558	RBPJL	2.0
+s_44462	PRRT2	2.0
+s_30938	LHB	2.0
+s_33858	MIA2	2.0
+s_1394	AEN	2.0
+s_39870	OXSR1	2.0
+s_4906	BAG6	2.0
+s_16155	DLK2	2.0
+s_35274	MTMR4	2.0
+s_10518	CD81	2.0
+s_39057	OR2F2	2.0
+s_43913	PRDM16	2.0
+s_34638	MRPL1	2.0
+s_612	ACER3	2.0
+s_32740	MAPK3	2.0
+s_16130	DLGAP1	2.0
+s_15564	DEFB119	2.0
+s_41047	PDGFC	2.0
+s_30824	LEPRE1	2.0
+s_19702	FAM189B	2.0
+s_16740	DPM3	2.0
+s_13557	CREB3L4	2.0
+s_10008	CCNA1	2.0
+s_58486	TP73	2.0
+s_18717	ESAM	2.0
+s_63612	ZNF280D	2.0
+s_14187	CTNND2	2.0
+s_59449	TSPO2	2.0
+s_42709	PLXNB3	2.0
+s_39221	OR4M2	2.0
+s_49750	SEMA3F	2.0
+s_8476	C9orf3	2.0
+s_45561	RAB11A	2.0
+s_5542	BMP5	2.0
+s_1064	ADAMTS4	2.0
+s_5354	BET3L	2.0
+s_17631	EGFLAM	2.0
+s_36593	NEBL	2.0
+s_6085	C10orf2	2.0
+s_13428	CPSF3L	2.0
+s_25023	HECW1	2.0
+s_3641	ARMC9	2.0
+s_56315	TFPT	2.0
+s_3278	ARHGAP22	2.0
+s_49946	SERPINA1	2.0
+s_20760	FDFT1	2.0
+s_26065	HRCT1	2.0
+s_50473	SH3GL1	2.0
+s_22971	GLI1	2.0
+s_24638	H6PD	2.0
+s_40488	PCDH11X	2.0
+s_61210	VEGFB	2.0
+s_28841	KCNQ5	2.0
+s_43717	PPP3R1	2.0
+s_25342	HIRA	2.0
+s_57951	TMPRSS4	2.0
+s_34011	MITF	2.0
+s_54412	STK32B	2.0
+s_16037	DISC1	2.0
+s_51701	SLC34A3	2.0
+s_54291	STAT4	2.0
+s_24419	GTF2I	2.0
+s_45973	RALB	2.0
+s_28705	KCNJ6	2.0
+s_5581	BNIP1	2.0
+s_19856	FAM213A	2.0
+s_18308	ENTPD1	2.0
+s_59198	TRPM1	2.0
+s_21871	FZD10	2.0
+s_1850	AKR1C4	2.0
+s_6867	C18orf54	2.0
+s_35715	MYO18B	2.0
+s_22242	GAPVD1	2.0
+s_32713	MAP7D3	2.0
+s_49953	SERPINA12	2.0
+s_55916	TCP11	2.0
+s_56174	TEX19	2.0
+s_22072	GAL	2.0
+s_41033	PDE9A	2.0
+s_26471	HYAL3	2.0
+s_60244	UBE2Z	2.0
+s_12589	CNEP1R1	2.0
+s_29896	KLK8	2.0
+s_29769	KLHL26	2.0
+s_39346	OR5AP2	2.0
+s_15213	DCPS	2.0
+s_48577	RTBDN	2.0
+s_32146	LYAR	2.0
+s_26382	HTR3C	2.0
+s_33001	MBD1	2.0
+s_41972	PIK3R2	2.0
+s_33212	MCOLN3	2.0
+s_35423	MUL1	2.0
+s_7838	C3orf35	2.0
+s_51092	SLC16A4	2.0
+s_20336	FASTK	2.0
+s_33469	MEI1	2.0
+s_5549	BMP7	2.0
+s_2490	ANKRD16	2.0
+s_38674	OGFRL1	2.0
+s_26322	HSPBAP1	2.0
+s_31244	LMNA	2.0
+s_34063	MLC1	2.0
+s_15550	DEFB113	2.0
+s_52892	SNX12	2.0
+s_25799	HOOK2	2.0
+s_55486	TAX1BP1	2.0
+s_4351	ATP5A1	2.0
+s_49917	SERHL2	2.0
+s_46614	RCHY1	2.0
+s_62680	ZBTB7B	2.0
+s_49488	SDCBP	2.0
+s_21866	FYTTD1	2.0
+s_23092	GLTPD1	2.0
+s_10675	CDC73	2.0
+s_12764	CNTN2	2.0
+s_9223	CASP5	2.0
+s_38310	NUDT8	2.0
+s_7059	C1QTNF9B	2.0
+s_33162	MCM3AP	2.0
+s_8498	C9orf50	2.0
+s_16876	DSC1	2.0
+s_14370	CWH43	2.0
+s_22565	GDPD1	2.0
+s_4304	ATP1B4	2.0
+s_3600	ARMC10	2.0
+s_18120	EMID1	2.0
+s_21865	FYN	2.0
+s_60042	U2SURP	2.0
+s_13930	CSNK1G3	2.0
+s_6618	C16orf53	2.0
+s_26173	HSD17B12	2.0
+s_46035	RANBP3L	2.0
+s_13167	CORO2A	2.0
+s_10481	CD6	2.0
+s_4563	ATPIF1	2.0
+s_50071	SERTAD4	2.0
+s_39089	OR2M3	2.0
+s_58390	TOR1AIP2	2.0
+s_45132	PTPN2	2.0
+s_34536	MPPED2	2.0
+s_24336	GSTM5	2.0
+s_38670	OGFR	2.0
+s_4606	ATXN3	2.0
+s_5049	BBS12	2.0
+s_28134	ITM2A	2.0
+s_23612	GPN1	2.0
+s_16085	DLEC1	2.0
+s_2525	ANKRD28	2.0
+s_1792	AKAP7	2.0
+s_27701	IPO11	2.0
+s_25633	HMGN5	2.0
+s_33287	MDM4	2.0
+s_17847	EIF4E	2.0
+s_58327	TOMM34	2.0
+s_54101	ST3GAL3	2.0
+s_41507	PGLYRP3	2.0
+s_38705	OLAH	2.0
+s_7336	C1orf61	2.0
+s_34439	MOSPD3	2.0
+s_33343	MED12	2.0
+s_30145	KRT75	2.0
+s_7793	C3orf18	2.0
+s_13874	CSH2	2.0
+s_14274	CTTN	2.0
+s_38166	NTRK2	2.0
+s_2916	APCDD1L	2.0
+s_41582	PHB	2.0
+s_16033	DISC1	2.0
+s_54156	ST7L	2.0
+s_21942	GABARAPL1	2.0
+s_19312	FAM115C	2.0
+s_5431	BIN1	2.0
+s_44378	PRR15	2.0
+s_22113	GALNT1	2.0
+s_11744	CHN1	2.0
+s_13702	CROT	2.0
+s_14052	CT62	2.0
+s_28143	ITM2C	2.0
+s_43456	PPM1B	2.0
+s_1396	AES	2.0
+s_21931	GAB2	2.0
+s_39536	OR8J3	2.0
+s_62622	ZBTB37	2.0
+s_10417	CD3G	2.0
+s_23789	GPR176	2.0
+s_37011	NICN1	2.0
+s_55412	TAS1R2	2.0
+s_36626	NEDD4L	2.0
+s_62812	ZCCHC4	2.0
+s_18097	EMC7	2.0
+s_36145	NAV2	2.0
+s_18994	EXOG	2.0
+s_61047	UTY	2.0
+s_57912	TMPRSS11B	2.0
+s_56577	THUMPD1	2.0
+s_8419	C9orf123	2.0
+s_36127	NAT9	2.0
+s_57557	TMEM240	2.0
+s_36157	NBEA	2.0
+s_16271	DMRTA2	2.0
+s_44643	PSG4	2.0
+s_53557	SPINK8	2.0
+s_36256	NCF4	2.0
+s_46280	RASSF6	2.0
+s_47580	RNF141	2.0
+s_8514	C9orf71	2.0
+s_62629	ZBTB4	2.0
+s_4286	ATP1A3	2.0
+s_36001	NAGK	2.0
+s_38778	OPA3	2.0
+s_8907	CAMK2A	2.0
+s_10448	CD5	2.0
+s_20085	FAM69B	2.0
+s_31389	LPCAT1	2.0
+s_56204	TEX34	2.0
+s_30139	KRT72	2.0
+s_34962	MS4A6A	2.0
+s_12886	COL17A1	2.0
+s_46458	RBM4	2.0
+s_37813	NR1I3	2.0
+s_10007	CCNA1	0
+s_10164	CCS	0
+s_10200	CCT7	0
+s_10232	CD164	0
+s_1035	ADAMTS14	0
+s_10381	CD300LG	0
+s_10402	CD37	0
+s_10405	CD38	0
+s_10408	CD3D	0
+s_10425	CD40	0
+s_10434	CD44	0
+s_10437	CD46	0
+s_10541	CD8B	0
+s_10563	CD99L2	0
+s_10582	CDC14B	0
+s_10594	CDC20B	0
+s_10657	CDC42SE2	0
+s_10658	CDC42SE2	0
+s_10785	CDH3	0
+s_10943	CDKL5	0
+s_1101	ADAMTSL4	0
+s_11025	CDSN	0
+s_11054	CEACAM1	0
+s_1113	ADAR	0
+s_11153	CELF4	0
+s_1116	ADARB1	0
+s_11218	CENPL	0
+s_11222	CENPM	0
+s_1127	ADAT2	0
+s_11294	CEP41	0
+s_11317	CEP63	0
+s_11456	CFH	0
+s_11585	CHD1	0
+s_11598	CHD3	0
+s_11692	CHL1	0
+s_1177	ADCY3	0
+s_1179	ADCY4	0
+s_1183	ADCY5	0
+s_11877	CHST13	0
+s_11928	CHUK	0
+s_12015	CITED1	0
+s_12019	CIZ1	0
+s_12021	CIZ1	0
+s_12049	CKLF-CMTM1	0
+s_12057	CKMT2	0
+s_12082	CLCC1	0
+s_12089	CLCF1	0
+s_1212	ADD1	0
+s_12120	CLCN7	0
+s_12121	CLCN7	0
+s_12138	CLDN10	0
+s_12140	CLDN10	0
+s_12177	CLDN2	0
+s_12187	CLDN25	0
+s_12203	CLDND1	0
+s_12209	CLDND2	0
+s_12420	CLPTM1	0
+s_12425	CLPX	0
+s_12433	CLRN2	0
+s_12522	CMPK2	0
+s_12576	CNBP	0
+s_12611	CNGB1	0
+s_12624	CNIH2	0
+s_12666	CNNM3	0
+s_12708	CNP	0
+s_12856	COG8	0
+s_12875	COL14A1	0
+s_12906	COL22A1	0
+s_12923	COL27A1	0
+s_13026	COLEC12	0
+s_13035	COMMD1	0
+s_13067	COMT	0
+s_13091	COPG1	0
+s_13123	COQ2	0
+s_13198	COX11	0
+s_13220	COX4I2	0
+s_13253	COX7A2L	0
+s_13287	CPA5	0
+s_13290	CPA6	0
+s_13309	CPE	0
+s_13328	CPED1	0
+s_13338	CPLX3	0
+s_13387	CPO	0
+s_13389	CPO	0
+s_13393	CPOX	0
+s_13405	CPS1	0
+s_13486	CR2	0
+s_13512	CRB1	0
+s_1357	ADRB1	0
+s_13579	CREBZF	0
+s_13662	CRK	0
+s_13686	CRMP1	0
+s_13718	CRTAM	0
+s_13755	CRYBA1	0
+s_13856	CSF3	0
+s_13857	CSF3	0
+s_13879	CSHL1	0
+s_1393	AEN	0
+s_13937	CSNK2A1	0
+s_13985	CSRP3	0
+s_14021	CSTA	0
+s_14099	CTCFL	0
+s_14107	CTD-2616J11.4	0
+s_14153	CTIF	0
+s_14189	CTNND2	0
+s_14226	CTSC	0
+s_14286	CTU2	0
+s_14338	CUTA	0
+s_14364	CWF19L1	0
+s_14369	CWH43	0
+s_14418	CXCL3	0
+s_14425	CXCL6	0
+s_14439	CXCR4	0
+s_14463	CXXC4	0
+s_14467	CXXC5	0
+s_1450	AGA	0
+s_14520	CXorf61	0
+s_14586	CYBA	0
+s_14670	CYP26A1	0
+s_14761	CYP3A4	0
+s_14894	DAB2IP	0
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+s_14995	DAXX	0
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+s_15017	DBF4	0
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+s_15320	DDI1	0
+s_15363	DDX17	0
+s_15385	DDX23	0
+s_15405	DDX31	0
+s_15438	DDX46	0
+s_15440	DDX47	0
+s_15472	DDX58	0
+s_15482	DDX6	0
+s_15488	DDX60L	0
+s_1549	AGPS	0
+s_1550	AGPS	0
+s_15520	DEF8	0
+s_15522	DEF8	0
+s_15563	DEFB119	0
+s_15566	DEFB119	0
+s_15586	DEFB127	0
+s_15648	DENND2D	0
+s_15655	DENND4A	0
+s_15679	DEPDC1	0
+s_15700	DERL1	0
+s_15731	DFFB	0
+s_15800	DGKI	0
+s_15867	DHRS3	0
+s_15897	DHX16	0
+s_15939	DHX40	0
+s_15965	DIAPH3	0
+s_15988	DIO1	0
+s_1599	AGXT2L1	0
+s_1609	AHCY	0
+s_16149	DLGAP5	0
+s_16175	DLX1	0
+s_16190	DLX3	0
+s_16294	DMXL2	0
+s_16341	DNAH9	0
+s_16417	DNAJC13	0
+s_16505	DNALI1	0
+s_16506	DNALI1	0
+s_16554	DNM2	0
+s_16577	DNMT3A	0
+s_16607	DOCK3	0
+s_1661	AIF1	0
+s_16629	DOCK8	0
+s_1663	AIF1L	0
+s_16675	DOPEY1	0
+s_16745	DPP10	0
+s_16798	DPYD	0
+s_16866	DRGX	0
+s_16867	DRGX	0
+s_1687	AIM1	0
+s_16878	DSC1	0
+s_16993	DUOX1	0
+s_17119	DUT	0
+s_17168	DYNC2LI1	0
+s_17195	DYRK1B	0
+s_17214	DYX1C1	0
+s_17224	DZIP1L	0
+s_17229	E2F1	0
+s_17374	ECT2	0
+s_17432	EDN2	0
+s_17440	EDNRA	0
+s_17442	EDNRB	0
+s_17459	EEF1D	0
+s_1766	AKAP14	0
+s_17709	EHMT2	0
+s_17762	EIF2B4	0
+s_1779	AKAP4	0
+s_17811	EIF3E	0
+s_17901	EIF5A2	0
+s_17942	ELF1	0
+s_17959	ELF5	0
+s_18018	ELOF1	0
+s_18106	EMCN	0
+s_18119	EMID1	0
+s_18125	EMILIN1	0
+s_18145	EML2	0
+s_18170	EMR1	0
+s_18171	EMR1	0
+s_18273	ENPP3	0
+s_1834	AKR1B10	0
+s_18362	EPB41L1	0
+s_18365	EPB41L1	0
+s_18409	EPHA10	0
+s_18423	EPHA4	0
+s_18445	EPHA8	0
+s_18531	EPS8L3	0
+s_18567	ERBB2IP	0
+s_18600	ERCC4	0
+s_18710	ERRFI1	0
+s_18739	ESM1	0
+s_18757	ESR2	0
+s_18767	ESRRA	0
+s_18772	ESRRB	0
+s_18782	ESYT1	0
+s_18809	ETHE1	0
+s_18849	ETV3	0
+s_18865	ETV4	0
+s_18908	EVL	0
+s_18920	EVX2	0
+s_18965	EXOC3L4	0
+s_19006	EXOSC3	0
+s_19048	EXTL2	0
+s_19126	F7	0
+s_19215	FAIM	0
+s_19254	FAM104A	0
+s_19255	FAM104B	0
+s_19499	FAM159A	0
+s_19605	FAM173B	0
+s_19614	FAM175B	0
+s_19633	FAM178A	0
+s_19664	FAM183A	0
+s_19674	FAM186A	0
+s_19699	FAM189B	0
+s_1971	ALDH8A1	0
+s_19728	FAM193A	0
+s_19736	FAM194A	0
+s_19744	FAM195B	0
+s_19747	FAM195B	0
+s_19859	FAM213B	0
+s_1992	ALG1	0
+s_200	ABCC2	0
+s_20007	FAM53A	0
+s_20077	FAM65B	0
+s_20080	FAM65C	0
+s_20106	FAM71B	0
+s_20116	FAM71E1	0
+s_20130	FAM73A	0
+s_20176	FAM83B	0
+s_2023	ALG3	0
+s_20269	FANCC	0
+s_20325	FAS	0
+s_2037	ALG9	0
+s_20377	FAXC	0
+s_20487	FBXO11	0
+s_2053	ALKBH4	0
+s_20616	FBXO7	0
+s_20635	FBXW2	0
+s_20686	FCGR1A	0
+s_20794	FEM1C	0
+s_20861	FGD1	0
+s_2092	ALOX5AP	0
+s_20946	FGF5	0
+s_21104	FIP1L1	0
+s_21231	FLT4	0
+s_21281	FMO4	0
+s_21342	FNDC5	0
+s_21375	FOLR1	0
+s_21504	FOXP1	0
+s_21627	FRMD8	0
+s_21642	FRRS1	0
+s_21650	FRS3	0
+s_21725	FTH1	0
+s_21736	FTSJ1	0
+s_21781	FUT10	0
+s_21813	FUZ	0
+s_21845	FXYD5	0
+s_21887	FZD8	0
+s_21895	G0S2	0
+s_21912	G6PC2	0
+s_21927	GAB1	0
+s_22006	GABRG2	0
+s_22033	GAD1	0
+s_2205	AMELX	0
+s_22151	GALNT5	0
+s_2226	AMIGO2	0
+s_22316	GATAD2A	0
+s_2238	AMMECR1L	0
+s_22485	GCNT2	0
+s_22537	GDF5	0
+s_22595	GEMIN5	0
+s_22608	GEMIN8	0
+s_22699	GGCX	0
+s_22715	GGPS1	0
+s_22741	GH1	0
+s_22810	GIMAP8	0
+s_2306	ANAPC11	0
+s_23236	GNAS	0
+s_23343	GNPDA1	0
+s_23423	GOLT1B	0
+s_23608	GPM6B	0
+s_23618	GPN3	0
+s_23683	GPR132	0
+s_2376	ANGPTL6	0
+s_23767	GPR161	0
+s_23963	GPT2	0
+s_23969	GPX2	0
+s_24129	GRIN2D	0
+s_24146	GRIP1	0
+s_24174	GRM3	0
+s_24199	GRM8	0
+s_24201	GRN	0
+s_24204	GRP	0
+s_24320	GSTCD	0
+s_24383	GTF2A2	0
+s_24430	GTF3C1	0
+s_24448	GTF3C5	0
+s_24533	GUK1	0
+s_2464	ANKRD10	0
+s_24644	HAAO	0
+s_24664	HADHB	0
+s_24741	HAT1	0
+s_24916	HDAC8	0
+s_24922	HDAC9	0
+s_24936	HDGF	0
+s_2497	ANKRD18A	0
+s_25016	HECTD3	0
+s_25027	HECW2	0
+s_2509	ANKRD23	0
+s_25157	HESX1	0
+s_25264	HHLA3	0
+s_25337	HIPK4	0
+s_25380	HIST1H2BC	0
+s_2539	ANKRD33	0
+s_25606	HMGCL	0
+s_25692	HNF1B	0
+s_25696	HNF4A	0
+s_25732	HNRNPCL1	0
+s_2579	ANKRD44	0
+s_2580	ANKRD44	0
+s_25914	HOXC6	0
+s_25988	HPD	0
+s_26064	HRC	0
+s_26290	HSPA8	0
+s_26388	HTR3D	0
+s_26556	ICT1	0
+s_26557	ICT1	0
+s_26805	IGDCC3	0
+s_26858	IGFBP4	0
+s_26862	IGFBP5	0
+s_26987	IKBKG	0
+s_27005	IKZF3	0
+s_27030	IL12A	0
+s_27046	IL13	0
+s_27111	IL17REL	0
+s_27114	IL18	0
+s_27146	IL1F10	0
+s_27151	IL1R1	0
+s_27183	IL1RN	0
+s_27202	IL20RB	0
+s_27215	IL22RA1	0
+s_27236	IL24	0
+s_27265	IL2RA	0
+s_27266	IL2RA	0
+s_2729	ANXA11	0
+s_27311	IL36G	0
+s_27324	IL37	0
+s_27330	IL4I1	0
+s_27332	IL4I1	0
+s_27347	IL6R	0
+s_27412	IMPA1	0
+s_27482	ING4	0
+s_27571	INS	0
+s_27580	INSIG1	0
+s_27604	INSM2	0
+s_27693	IP6K3	0
+s_27760	IQCF1	0
+s_27828	IRAK2	0
+s_27843	IRF1	0
+s_27868	IRF6	0
+s_27958	IST1	0
+s_27995	ITGA11	0
+s_28004	ITGA3	0
+s_2807	AP2A1	0
+s_28135	ITM2A	0
+s_28192	ITSN1	0
+s_28215	IYD	0
+s_2828	AP3B2	0
+s_28288	JMJD1C	0
+s_2837	AP3S1	0
+s_28436	KAT8	0
+s_28463	KAZN	0
+s_28510	KCNA10	0
+s_28650	KCNIP1	0
+s_28680	KCNJ13	0
+s_28725	KCNK10	0
+s_28742	KCNK16	0
+s_28750	KCNK18	0
+s_28834	KCNQ4	0
+s_29117	KIAA0284	0
+s_29140	KIAA0430	0
+s_29312	KIAA1598	0
+s_29387	KIF13A	0
+s_29471	KIF2B	0
+s_29554	KIRREL3	0
+s_29561	KISS1	0
+s_29590	KLC3	0
+s_29591	KLC4	0
+s_29627	KLF15	0
+s_2968	APLP1	0
+s_29735	KLHL18	0
+s_29841	KLHL8	0
+s_29843	KLHL9	0
+s_29897	KLK8	0
+s_299	ABHD14B	0
+s_30162	KRT8	0
+s_30215	KRTAP12-3	0
+s_30263	KRTAP26-1	0
+s_30311	KRTAP9-3	0
+s_30357	L3MBTL1	0
+s_30378	LACE1	0
+s_30446	LAMC1	0
+s_3051	APOF	0
+s_30538	LARP7	0
+s_30551	LAS1L	0
+s_30559	LAT	0
+s_30590	LBR	0
+s_3067	APOL3	0
+s_30738	LDHD	0
+s_30741	LDLR	0
+s_30745	LDLRAD1	0
+s_30755	LDLRAP1	0
+s_30825	LEPRE1	0
+s_30864	LGALS12	0
+s_30870	LGALS14	0
+s_31007	LIAS	0
+s_31011	LIF	0
+s_31023	LIG4	0
+s_31115	LIN9	0
+s_31142	LIPF	0
+s_31160	LIPJ	0
+s_3120	AQP10	0
+s_31206	LMAN2	0
+s_31223	LMBRD2	0
+s_31279	LMOD1	0
+s_31294	LMX1A	0
+s_31338	LOX	0
+s_31344	LOXHD1	0
+s_3141	AQP6	0
+s_31415	LPHN3	0
+s_31436	LPL	0
+s_3145	AQP7	0
+s_31454	LPPR5	0
+s_3146	AQP8	0
+s_3152	AQP9	0
+s_31550	LRP12	0
+s_31587	LRP8	0
+s_316	ABHD2	0
+s_31657	LRRC25	0
+s_3173	ARAP2	0
+s_31733	LRRC42	0
+s_31805	LRRC71	0
+s_31854	LRRFIP2	0
+s_32	AADACL2	0
+s_32012	LTBP1	0
+s_32024	LTBP3	0
+s_32073	LUZP1	0
+s_32131	LY75-CD302	0
+s_32160	LYL1	0
+s_32271	LZIC	0
+s_32315	MACROD2	0
+s_32407	MAGEC3	0
+s_32418	MAGEE2	0
+s_32434	MAGI3	0
+s_32474	MAMDC4	0
+s_32504	MAN1A2	0
+s_32521	MAN2B1	0
+s_32555	MANSC1	0
+s_32594	MAP2	0
+s_32656	MAP3K7	0
+s_32657	MAP3K7	0
+s_32687	MAP6	0
+s_32689	MAP6	0
+s_32700	MAP7	0
+s_32773	MAPKAP1	0
+s_32837	4-Mar	0
+s_32844	6-Mar	0
+s_32962	MATN3	0
+s_3297	ARHGAP26	0
+s_33017	MBD4	0
+s_3312	ARHGAP30	0
+s_33131	MCF2	0
+s_3317	ARHGAP30	0
+s_33192	MCM9	0
+s_33218	MCRS1	0
+s_33319	MECP2	0
+s_33476	MEIS2	0
+s_33561	METTL1	0
+s_33565	METTL11B	0
+s_33625	METTL23	0
+s_33723	MFNG	0
+s_33750	MFSD2B	0
+s_338	ABI1	0
+s_33812	MGAT4B	0
+s_33844	MGST1	0
+s_33885	MICAL3	0
+s_33958	MINA	0
+s_34151	MLXIPL	0
+s_34213	MMP2	0
+s_34226	MMP24	0
+s_34294	MNT	0
+s_34310	MOB1B	0
+s_3432	ARHGEF26	0
+s_3437	ARHGEF3	0
+s_34406	MORF4L2	0
+s_34464	MPDZ	0
+s_34474	MPHOSPH10	0
+s_34503	MPND	0
+s_34529	MPP7	0
+s_34624	MRI1	0
+s_34715	MRPL33	0
+s_34909	MRRF	0
+s_34918	MRVI1	0
+s_34944	MS4A14	0
+s_35008	MSH4	0
+s_35013	MSH4	0
+s_35139	MTA1	0
+s_35186	MTF1	0
+s_3526	ARL11	0
+s_35281	MTMR7	0
+s_35375	MUC1	0
+s_35396	MUC21	0
+s_35406	MUC4	0
+s_3544	ARL16	0
+s_35478	MXD1	0
+s_35480	MXD3	0
+s_35497	MXRA7	0
+s_35519	MYBPC1	0
+s_35569	MYD88	0
+s_35596	MYH11	0
+s_35682	MYLK	0
+s_35796	MYOF	0
+s_35811	MYOM3	0
+s_35836	MYPOP	0
+s_35923	NAA60	0
+s_35935	NAALADL2	0
+s_35964	NACC1	0
+s_35973	NADK	0
+s_36044	NANS	0
+s_36143	NAV2	0
+s_36222	NCAPH2	0
+s_36273	NCKAP1L	0
+s_36282	NCKAP5	0
+s_36286	NCKIPSD	0
+s_36335	NCR1	0
+s_36342	NCR3	0
+s_36351	NCS1	0
+s_36386	NDOR1	0
+s_36482	NDUFAF3	0
+s_3650	ARMCX4	0
+s_36519	NDUFB5	0
+s_3668	ARNTL2	0
+s_3670	ARPC1A	0
+s_36703	NELF	0
+s_36740	NEU1	0
+s_36825	NFATC2	0
+s_37035	NINJ1	0
+s_37048	NIPA1	0
+s_37084	NIT1	0
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+s_37103	NKAIN4	0
+s_37151	NKX2-5	0
+s_37222	NLRC4	0
+s_37258	NLRP3	0
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+s_37286	NMB	0
+s_37326	NME7	0
+s_37384	NMUR1	0
+s_37407	NOA1	0
+s_37430	NODAL	0
+s_37438	NOL10	0
+s_37451	NOL4	0
+s_37502	NOS1	0
+s_37572	NOX1	0
+s_37579	NOX4	0
+s_37655	NPHP1	0
+s_37801	NR1H4	0
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+s_37816	NR2C1	0
+s_37863	NR4A2	0
+s_37868	NR4A3	0
+s_3791	ARV1	0
+s_37945	NRL	0
+s_37963	NRP2	0
+s_37972	NRSN2	0
+s_37991	NRXN2	0
+s_38022	NSFL1C	0
+s_38097	NT5DC2	0
+s_38124	NTM	0
+s_3813	ASAP1	0
+s_38169	NTRK2	0
+s_38179	NTSR2	0
+s_38202	NUBP2	0
+s_38205	NUBPL	0
+s_38212	NUCB2	0
+s_38225	NUDCD2	0
+s_38305	NUDT7	0
+s_38336	NUMB	0
+s_3841	ASB11	0
+s_38429	NUSAP1	0
+s_38431	NUSAP1	0
+s_38516	NYX	0
+s_38525	OAS1	0
+s_38567	OBSL1	0
+s_38592	OCM2	0
+s_38602	ODAM	0
+s_38679	OGG1	0
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+s_38747	OLR1	0
+s_3881	ASB4	0
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+s_38832	OPTC	0
+s_3888	ASB6	0
+s_38901	OR10W1	0
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+s_39135	OR2T8	0
+s_39192	OR4D6	0
+s_39237	OR4X2	0
+s_39262	OR51F2	0
+s_3938	ASGR2	0
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+s_39620	OSBP2	0
+s_39650	OSBPL3	0
+s_39654	OSBPL5	0
+s_39737	OTOA	0
+s_39747	OTOF	0
+s_39802	OTUD7A	0
+s_39865	OXSM	0
+s_39964	PABPC1	0
+s_39972	PABPC4	0
+s_39987	PACRGL	0
+s_40004	PACSIN2	0
+s_40016	PADI2	0
+s_40055	PAGE2B	0
+s_40089	PAK2	0
+s_40120	PALM	0
+s_40137	PAM	0
+s_40148	PAN2	0
+s_40156	PANK1	0
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+s_40182	PAOX	0
+s_40184	PAPD4	0
+s_40227	PAQR5	0
+s_4025	ASS1	0
+s_40261	PARD6B	0
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+s_40392	PAX3	0
+s_40395	PAX3	0
+s_40397	PAX3	0
+s_4041	ASTN2	0
+s_40436	PBOV1	0
+s_40457	PCBD1	0
+s_40487	PCDH11X	0
+s_40510	PCDH19	0
+s_40521	PCDH7	0
+s_40597	PCDHB2	0
+s_40606	PCDHB8	0
+s_40925	PDE2A	0
+s_40936	PDE4A	0
+s_41027	PDE8B	0
+s_41077	PDIA2	0
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+s_41138	PDLIM5	0
+s_41141	PDLIM7	0
+s_41145	PDP1	0
+s_41185	PDYN	0
+s_41279	PELP1	0
+s_41294	PER2	0
+s_41347	PEX19	0
+s_41439	PFN4	0
+s_41474	PGBD2	0
+s_41620	PHF13	0
+s_41701	PHKG2	0
+s_41772	PHYHIPL	0
+s_41807	PIAS1	0
+s_41879	PIGR	0
+s_41955	PIK3CD	0
+s_42051	PIP5KL1	0
+s_42055	PIP5KL1	0
+s_42068	PISD	0
+s_42081	PITPNC1	0
+s_4209	ATL2	0
+s_42107	PITX3	0
+s_42123	PJA1	0
+s_42148	PKD2L2	0
+s_42162	PKHD1L1	0
+s_42181	PKM	0
+s_42215	PKP3	0
+s_4224	ATN1	0
+s_42243	PLA2G16	0
+s_42261	PLA2G2E	0
+s_42292	PLA2G5	0
+s_42305	PLA2R1	0
+s_42321	PLAC8L1	0
+s_42351	PLB1	0
+s_42366	PLCB2	0
+s_42392	PLCH1	0
+s_42446	PLEC	0
+s_42467	PLEKHA5	0
+s_42519	PLEKHG6	0
+s_42536	PLEKHM1	0
+s_42544	PLEKHM3	0
+s_42554	PLEKHO1	0
+s_42560	PLEKHS1	0
+s_42616	PLOD1	0
+s_42663	PLSCR5	0
+s_42751	PML	0
+s_42792	PNCK	0
+s_42839	PNN	0
+s_42932	PODXL2	0
+s_43016	POLK	0
+s_43060	POLR2C	0
+s_43122	POLR3G	0
+s_43155	POMT1	0
+s_43158	POMT1	0
+s_43253	POU6F2	0
+s_43302	PPAPDC1B	0
+s_43354	PPFIA1	0
+s_4339	ATP2C1	0
+s_43430	PPIL4	0
+s_43445	PPM1A	0
+s_43527	PPP1R12B	0
+s_43533	PPP1R13B	0
+s_43542	PPP1R14A	0
+s_43623	PPP1R3F	0
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+s_43789	PQLC2	0
+s_43834	PRAMEF13	0
+s_43837	PRAMEF16	0
+s_43862	PRB4	0
+s_4406	ATP5S	0
+s_44065	PRKACB	0
+s_44075	PRKAG2	0
+s_44091	PRKAR1B	0
+s_441	AC013461.1	0
+s_44162	PRKRA	0
+s_44181	PRLH	0
+s_44189	PRLR	0
+s_44260	PROKR1	0
+s_44270	PROM1	0
+s_44298	PRPF18	0
+s_44319	PRPF39	0
+s_44361	PRPSAP2	0
+s_44460	PRRT2	0
+s_44485	PRSS12	0
+s_4457	ATP6V0E2	0
+s_44634	PSG11	0
+s_44654	PSG8	0
+s_44726	PSMB5	0
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+s_44782	PSMD13	0
+s_44808	PSMD8	0
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+s_44935	PTCHD4	0
+s_45050	PTK2	0
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+s_45165	PTPN7	0
+s_4523	ATP8A1	0
+s_45249	PTPRU	0
+s_45290	PUF60	0
+s_45296	PUM1	0
+s_45536	R3HCC1L	0
+s_45566	RAB11FIP1	0
+s_45586	RAB11FIP5	0
+s_45600	RAB15	0
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+s_45604	RAB17	0
+s_45627	RAB24	0
+s_45707	RAB3C	0
+s_45729	RAB3IP	0
+s_45763	RAB6A	0
+s_45796	RAB9B	0
+s_45894	RAD51AP1	0
+s_45908	RAD51C	0
+s_45960	RAI14	0
+s_45961	RAI14	0
+s_46068	RAP1GDS1	0
+s_46107	RAPH1	0
+s_46265	RASSF4	0
+s_46298	RAVER2	0
+s_46321	RBBP5	0
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+s_46355	RBFOX3	0
+s_46452	RBM39	0
+s_46581	RCAN1	0
+s_46634	RCOR2	0
+s_46639	RCSD1	0
+s_46646	RD3	0
+s_46657	RDH10	0
+s_46672	RDH13	0
+s_46717	REEP1	0
+s_46821	RERG	0
+s_46827	RERGL	0
+s_46848	RETNLB	0
+s_46976	RFXANK	0
+s_47005	RGL2	0
+s_4703	AXIN1	0
+s_47100	RGS3	0
+s_47144	RHAG	0
+s_47186	RHD	0
+s_47216	RHOC	0
+s_47394	RIPPLY1	0
+s_47413	RLBP1	0
+s_47554	RNF130	0
+s_47584	RNF144A	0
+s_47594	RNF145	0
+s_47622	RNF165	0
+s_47710	RNF215	0
+s_47777	RNF44	0
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+s_47786	RNF7	0
+s_47791	RNF8	0
+s_47915	RP11-178D12.1	0
+s_47946	RP11-428C6.1	0
+s_47969	RP11-6F2.7	0
+s_47970	RP11-6F2.7	0
+s_48013	RP4-697K14.7	0
+s_48066	RPAP3	0
+s_48073	RPE	0
+s_48097	RPH3AL	0
+s_48098	RPH3AL	0
+s_48179	RPL36	0
+s_48201	RPL6	0
+s_4837	B4GALT5	0
+s_48399	RPUSD2	0
+s_4841	B4GALT6	0
+s_48414	RQCD1	0
+s_4843	B4GALT7	0
+s_48438	RREB1	0
+s_48461	RRNAD1	0
+s_48488	RRS1	0
+s_48512	RSC1A1	0
+s_4868	BACE1	0
+s_48714	RUSC1	0
+s_48860	S100B	0
+s_48874	S100Z	0
+s_48933	SALL3	0
+s_4898	BAG4	0
+s_49069	SASS6	0
+s_49192	SCARB1	0
+s_49246	SCGB1D1	0
+s_4925	BAIAP2	0
+s_49278	SCIN	0
+s_49297	SCML1	0
+s_49354	SCN7A	0
+s_49570	SDR9C7	0
+s_49599	SEC14L2	0
+s_49625	SEC22A	0
+s_49651	SEC24D	0
+s_49668	SEC61A2	0
+s_49706	SELE	0
+s_4972	BARHL2	0
+s_49775	SEMA4F	0
+s_49799	SEMA6D	0
+s_49844	SEPP1	0
+s_49859	12-Sep	0
+s_49881	5-Sep	0
+s_49934	SERINC5	0
+s_49957	SERPINA3	0
+s_50004	SERPINB5	0
+s_5001	BAX	0
+s_5006	BAZ1A	0
+s_50112	SETD3	0
+s_50123	SETD6	0
+s_50127	SETD7	0
+s_50162	SEZ6L2	0
+s_5022	BAZ2B	0
+s_5026	BBC3	0
+s_50280	SGCA	0
+s_50284	SGCB	0
+s_50342	SGPP2	0
+s_50388	SH2D3C	0
+s_50391	SH2D3C	0
+s_50491	SH3KBP1	0
+s_505	ACACB	0
+s_50517	SH3TC2	0
+s_5056	BBS4	0
+s_50560	SHE	0
+s_50596	SHISA6	0
+s_50652	SI	0
+s_50684	SIGLEC1	0
+s_50692	SIGLEC10	0
+s_50693	SIGLEC11	0
+s_50722	SIGLEC9	0
+s_50761	SIPA1	0
+s_50779	SIRPB1	0
+s_50780	SIRPB1	0
+s_51043	SLC15A1	0
+s_51096	SLC16A5	0
+s_51179	SLC1A2	0
+s_51276	SLC22A5	0
+s_51312	SLC24A4	0
+s_51344	SLC25A13	0
+s_51482	SLC25A5	0
+s_51528	SLC26A9	0
+s_51555	SLC28A1	0
+s_51613	SLC2A6	0
+s_51660	SLC30A6	0
+s_51715	SLC35A4	0
+s_51729	SLC35B3	0
+s_51774	SLC35F3	0
+s_51783	SLC35G2	0
+s_51872	SLC39A14	0
+s_51904	SLC39A8	0
+s_52017	SLC4A2	0
+s_52093	SLC5A5	0
+s_52206	SLC7A14	0
+s_52255	SLC8A2	0
+s_52313	SLC9B1	0
+s_52364	SLCO4C1	0
+s_52383	SLFN13	0
+s_52421	SLITRK4	0
+s_52435	SLMO1	0
+s_52485	SMAP1	0
+s_5253	BCO2	0
+s_52574	SMCR8	0
+s_52587	SMG5	0
+s_52601	SMG7	0
+s_52617	SMO	0
+s_52642	SMPD4	0
+s_5268	BDH1	0
+s_52758	SNAPIN	0
+s_52784	SNIP1	0
+s_52787	SNIP1	0
+s_52833	SNRPB2	0
+s_52989	SNX8	0
+s_53	AAK1	0
+s_53048	SON	0
+s_53055	SORBS1	0
+s_53109	SOSTDC1	0
+s_53151	SOX30	0
+s_53153	SOX30	0
+s_53181	SP100	0
+s_53438	SPDYC	0
+s_53476	SPERT	0
+s_53512	SPI1	0
+s_53525	SPIN1	0
+s_53535	SPINK1	0
+s_53555	SPINK6	0
+s_53574	SPINT1	0
+s_53639	SPP1	0
+s_53691	SPRR3	0
+s_53740	SPTA1	0
+s_53830	SREK1	0
+s_53993	SSBP1	0
+s_54019	SSPN	0
+s_54054	SSTR5	0
+s_54078	ST14	0
+s_54092	ST3GAL3	0
+s_54099	ST3GAL3	0
+s_54292	STAT5A	0
+s_54305	STATH	0
+s_54314	STAU2	0
+s_54327	STC2	0
+s_5437	BIN2	0
+s_54380	STK17A	0
+s_54403	STK3	0
+s_54480	STON1	0
+s_54588	STX5	0
+s_54609	STXBP4	0
+s_54639	SUCLG1	0
+s_54645	SUCNR1	0
+s_54679	SULT1B1	0
+s_54684	SULT1C3	0
+s_54704	SULT2B1	0
+s_54758	SUPT4H1	0
+s_54772	SUPV3L1	0
+s_54801	SUSD4	0
+s_54866	SWT1	0
+s_5492	BLOC1S3	0
+s_54942	SYNDIG1	0
+s_5503	BMF	0
+s_55131	SZT2	0
+s_55147	TAAR8	0
+s_55187	TACO1	0
+s_55464	TAS2R8	0
+s_55509	TBC1D10C	0
+s_55520	TBC1D14	0
+s_55528	TBC1D15	0
+s_55577	TBC1D30	0
+s_55709	TBX21	0
+s_55725	TBX5	0
+s_55844	TCF4	0
+s_55845	TCF4	0
+s_55862	TCF7L2	0
+s_55868	TCHH	0
+s_5588	BNIP2	0
+s_55911	TCP10L2	0
+s_55913	TCP11	0
+s_55922	TCP11L2	0
+s_55946	TCTN1	0
+s_56006	TEAD2	0
+s_56014	TEAD4	0
+s_56080	TEN1	0
+s_56099	TERF1	0
+s_56118	TES	0
+s_56167	TEX13B	0
+s_5618	BOK	0
+s_56207	TEX9	0
+s_56284	TFEC	0
+s_56297	TFG	0
+s_56361	TGFBR2	0
+s_56373	TGIF1	0
+s_56415	TGS1	0
+s_56492	THEM4	0
+s_56509	THNSL1	0
+s_5655	BPIFA1	0
+s_56621	TIFA	0
+s_56646	TIMD4	0
+s_56684	TIMM8B	0
+s_56805	TLL1	0
+s_56819	TLR10	0
+s_56826	TLR3	0
+s_56873	TM4SF18	0
+s_57016	TMED10	0
+s_57082	TMEM106C	0
+s_57087	TMEM107	0
+s_57150	TMEM127	0
+s_57173	TMEM132B	0
+s_57181	TMEM132E	0
+s_57189	TMEM134	0
+s_57288	TMEM164	0
+s_57299	TMEM167B	0
+s_57409	TMEM194A	0
+s_57422	TMEM198	0
+s_57429	TMEM2	0
+s_57475	TMEM212	0
+s_57531	TMEM231	0
+s_57568	TMEM245	0
+s_57700	TMEM54	0
+s_57873	TMF1	0
+s_57992	TMUB1	0
+s_58180	TNIP1	0
+s_58211	TNKS2	0
+s_58237	TNNT1	0
+s_58256	TNPO2	0
+s_58259	TNPO3	0
+s_58309	TOM1	0
+s_58485	TP73	0
+s_58503	TPD52	0
+s_58533	TPI1	0
+s_5857	BSPRY	0
+s_58612	TPSG1	0
+s_58633	TRA2B	0
+s_58655	TRAF3	0
+s_58668	TRAF3IP2	0
+s_58690	TRAK1	0
+s_58809	TRIB2	0
+s_58962	TRIM50	0
+s_58968	TRIM52	0
+s_59050	TRIO	0
+s_59107	TRMT1L	0
+s_59133	TRMT61B	0
+s_59160	TROVE2	0
+s_59173	TRPC4	0
+s_59196	TRPM1	0
+s_59204	TRPM3	0
+s_59311	TSEN54	0
+s_59332	TSHB	0
+s_59340	TSHZ2	0
+s_59360	TSNARE1	0
+s_5952	BTG4	0
+s_59539	TTC21A	0
+s_59602	TTC39A	0
+s_59654	TTC9C	0
+s_59717	TTLL6	0
+s_5974	BTN3A1	0
+s_59748	TTYH1	0
+s_59807	TUBB2B	0
+s_59859	TULP1	0
+s_59870	TULP3	0
+s_59955	TXNDC8	0
+s_59983	TXNRD2	0
+s_600	ACE	0
+s_60169	UBE2H	0
+s_60209	UBE2Q2	0
+s_60237	UBE2V2	0
+s_60248	UBE3A	0
+s_60250	UBE3B	0
+s_60373	UBXN6	0
+s_60396	UCKL1	0
+s_60423	UEVLD	0
+s_60438	UFSP1	0
+s_60449	UGDH	0
+s_60517	UGT2A1	0
+s_60542	UGT3A1	0
+s_60603	UMODL1	0
+s_60614	UNC119	0
+s_60649	UNC5B	0
+s_6068	C10orf125	0
+s_6071	C10orf128	0
+s_60753	UQCRC2	0
+s_60780	URM1	0
+s_60839	USP15	0
+s_60851	USP19	0
+s_60925	USP4	0
+s_6100	C10orf53	0
+s_6106	C10orf54	0
+s_61149	VAV2	0
+s_61173	VCAM1	0
+s_61178	VCAN	0
+s_61221	VEPH1	0
+s_61263	VIL1	0
+s_61341	VPS13C	0
+s_61344	VPS13D	0
+s_61367	VPS29	0
+s_61529	VWA5A	0
+s_61531	VWA5A	0
+s_61587	WBP1	0
+s_61595	WBP2	0
+s_61623	WDFY1	0
+s_61640	WDHD1	0
+s_61662	WDR16	0
+s_61695	WDR26	0
+s_61739	WDR44	0
+s_6200	C11orf49	0
+s_62019	WISP1	0
+s_62098	WNT5B	0
+s_62114	WNT8A	0
+s_62171	WTAP	0
+s_62249	XKR3	0
+s_62257	XKR6	0
+s_62275	XPC	0
+s_62320	XRCC4	0
+s_62361	YAE1D1	0
+s_62550	ZBBX	0
+s_62559	ZBED6	0
+s_62567	ZBTB1	0
+s_62624	ZBTB37	0
+s_62657	ZBTB47	0
+s_62759	ZC3H7A	0
+s_62845	ZDHHC11	0
+s_62862	ZDHHC16	0
+s_62881	ZDHHC2	0
+s_6292	C12orf23	0
+s_62975	ZFC3H1	0
+s_63034	ZFP64	0
+s_63104	ZFYVE27	0
+s_63107	ZFYVE27	0
+s_63114	ZFYVE28	0
+s_63217	ZMIZ2	0
+s_63228	ZMYM3	0
+s_63234	ZMYM3	0
+s_6326	C12orf49	0
+s_63302	ZNF132	0
+s_63362	ZNF167	0
+s_63435	ZNF200	0
+s_63487	ZNF223	0
+s_63594	ZNF276	0
+s_636	ACO1	0
+s_63746	ZNF354B	0
+s_63755	ZNF362	0
+s_6376	C12orf74	0
+s_63903	ZNF436	0
+s_63905	ZNF438	0
+s_63923	ZNF442	0
+s_63934	ZNF445	0
+s_63935	ZNF446	0
+s_63964	ZNF469	0
+s_63983	ZNF480	0
+s_6409	C14orf105	0
+s_64137	ZNF554	0
+s_64241	ZNF586	0
+s_6427	C14orf133	0
+s_64356	ZNF639	0
+s_64393	ZNF655	0
+s_64396	ZNF655	0
+s_64419	ZNF668	0
+s_64424	ZNF669	0
+s_64459	ZNF682	0
+s_64479	ZNF688	0
+s_64581	ZNF746	0
+s_64627	ZNF772	0
+s_64638	ZNF776	0
+s_64652	ZNF780A	0
+s_64791	ZNF85	0
+s_64851	ZNRF3	0
+s_64871	ZPBP	0
+s_64878	ZPLD1	0
+s_64898	ZSCAN10	0
+s_64930	ZSCAN30	0
+s_64997	ZYG11A	0
+s_6525	C15orf39	0
+s_6592	C16orf13	0
+s_6639	C16orf62	0
+s_6707	C17orf102	0
+s_6710	C17orf104	0
+s_6728	C17orf112	0
+s_6736	C17orf39	0
+s_6794	C17orf72	0
+s_6814	C17orf80	0
+s_6849	C18orf21	0
+s_6859	C18orf32	0
+s_6862	C18orf34	0
+s_6906	C19orf38	0
+s_7053	C1QTNF7	0
+s_7128	C1orf122	0
+s_7144	C1orf130	0
+s_7162	C1orf144	0
+s_7234	C1orf198	0
+s_7341	C1orf63	0
+s_747	ACSL1	0
+s_76	AARS2	0
+s_7674	C2orf57	0
+s_7681	C2orf62	0
+s_7692	C2orf63	0
+s_77	AARSD1	0
+s_78	AARSD1	0
+s_781	ACSS1	0
+s_786	ACSS2	0
+s_7940	C4orf26	0
+s_7970	C4orf37	0
+s_8000	C4orf52	0
+s_804	ACTB	0
+s_8073	C5orf51	0
+s_8141	C6orf162	0
+s_8227	C7orf10	0
+s_8281	C7orf59	0
+s_8318	C8A	0
+s_8403	C9orf100	0
+s_8470	C9orf24	0
+s_8699	CACNA1G	0
+s_8705	CACNA1I	0
+s_871	ACTR8	0
+s_874	ACTR8	0
+s_8757	CACNG5	0
+s_8797	CADPS	0
+s_8879	CALR	0
+s_8910	CAMK2B	0
+s_893	ACVR1B	0
+s_8930	CAMKK1	0
+s_8954	CAMSAP1	0
+s_9064	CAPRIN1	0
+s_9077	CAPSL	0
+s_9109	CARD17	0
+s_913	ACY1	0
+s_9171	CASD1	0
+s_9196	CASP10	0
+s_9285	CATSPER3	0
+s_9506	CCDC120	0
+s_9507	CCDC121	0
+s_952	ADAM12	0
+s_9584	CCDC149	0
+s_964	ADAM18	0
+s_9646	CCDC170	0
+s_9710	CCDC40	0
+s_9732	CCDC48	0
+s_976	ADAM21	0
+s_9763	CCDC62	0
+s_9868	CCDC89	0
+s_991	ADAM30	0
+s_9925	CCL1	0
+s_9973	CCL26	0
--- a/test-data/out.test.R	Sat Feb 17 10:41:26 2018 -0500
+++ b/test-data/out.test.R	Wed Apr 04 11:03:29 2018 -0400
@@ -10,7 +10,7 @@
 # outputfile='__OUTPUT_FILE__'
 targetgenelist=c("ACIN1","ACTR8","AHCY","ACLY","AATF","AGBL5","AHCTF1","ABT1","ADIRF","ABCF1")
 # samplelabel=sub('.\\w+.\\w+$','',colnames(gstable)[startindex]);
-samplelabel='HL60.final,KBM7.final_vs_HL60.initial,KBM7.initial neg.'
+samplelabel='HL60_final,KBM7_final_vs_HL60_initial,KBM7_initial neg.'


 # You need to write some codes in front of this code:
@@ -116,7 +116,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(561.4907165816957,824.0396348113272,428.37415340969943,579.047491896501),c(3424.79939695118,3818.2871009576584,1992.3498917052,690.0506672205338),c(846.6456878299913,985.6508562937211,335.0024675413113,415.97581680707134),c(2432.636481525409,2122.257249136931,1067.465489792653,155.6333179800872),c(1308.1851773762019,2186.1913587343615,1482.5909580453515,997.3120339679854),c(405.68439208520414,268.16807081144486,170.34023773287015,109.85881269182627),c(640.8637498157573,559.4234589775174,711.6436598617687,632.2603542941043),c(946.5969148654764,470.6260845366416,663.0651476194316,457.74505288260946),c(246.9383256170808,177.59474888175154,28.39003962214503,0.0),c(568.8400715107754,612.7018836420428,564.0154538266146,270.64176251684285))
 targetgene="ACIN1"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -151,7 +151,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(2484.0819660289676,2349.578527705573,2172.7843657481662,910.9126552363929),c(992.1629154257711,1005.1862786707138,743.8190381001997,200.26346063614164),c(1267.0287897733551,1156.1418152202027,251.09412821363824,42.34141739164138),c(1500.738276518092,1315.977089213779,800.5991173444897,1476.2277955464156),c(1925.5309914189038,2054.7712445618654,194.94493873872918,235.16652091844063),c(351.29916561001374,781.4168950797068,227.75120674654121,624.2498158686586),c(1719.74905340467,1006.9622261595313,356.45271970026533,222.0063506480656),c(903.9706562768137,1445.6212558974576,1482.5909580453515,1055.1023468944147),c(651.152846716469,1081.552020689867,576.0023594448536,1072.2677863775127),c(285.1549712482957,408.46792242802854,99.0496937928171,44.630142656054424))
 targetgene="ACTR8"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -186,7 +186,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(301.3235520922712,657.1005708624807,228.38209651592223,137.32351586478285),c(1142.0897559789987,1099.311495578042,112.92926871919911,100.70391163417409),c(789.3207193831689,671.3081507730209,723.6305654800077,588.7745742702564),c(392.45555321286054,412.0198174056636,334.37157777193033,213.99581222261992),c(2009.3136376104133,2235.917888421252,2437.1271791188055,1937.9781176417478),c(1071.5359486598327,406.69197493921104,645.4002340767636,349.602784139093),c(61.7345814042702,218.44154112455442,614.4866353770946,452.5954210376801),c(651.152846716469,879.0940069646701,237.21455328725622,18.88198343140764),c(1625.6773103124485,1410.1023061211074,2146.286995434164,1986.613529510525),c(1053.8974968300413,882.6459019423052,106.6203710253891,105.85354347910344))
 targetgene="AHCY"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -221,7 +221,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(1268.498660759171,1411.8782536099247,1136.2324746551822,603.6512884889412),c(327.78122983695846,454.642557137284,51.73296108924205,24.031615276336996),c(132.28838872343613,241.5288584791821,123.02350502929512,65.80085135187511),c(495.34652221997754,586.0626713097802,279.4841678357833,243.74924065998954),c(1009.8013672555626,1102.8633905556771,1237.174837756142,1004.7503910773278),c(877.5129785321263,715.7068379934587,538.1489732819936,594.496387431289),c(1594.8100196103135,1108.1912330221296,605.6541786057605,127.59643349102738),c(314.5523909646148,252.1845434120872,88.95545748272109,359.9020478289517),c(512.984974049769,269.94401830026237,205.67006481820619,126.45207085882086),c(761.3931706526657,475.9539270030942,559.5992254409475,596.7851126957021))
 targetgene="ACLY"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -256,7 +256,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(659.9720726313648,809.832054900787,880.7221180558769,802.1982051767731),c(724.6463960072668,1086.8798631563195,695.2405258578626,307.26136674745163),c(836.3565909292796,1289.3378768815162,468.75109865008346,177.94838930811443),c(367.46774645398926,571.85509139924,300.30353022535627,116.72498848506541),c(518.8644579930328,632.2373060190355,627.7353205340956,308.9779106957614),c(405.68439208520414,259.28833336735727,324.27734146183434,166.5047629860492),c(2096.0360257735547,1960.6460276545372,1573.4390848362154,629.9716290296913),c(277.8056163192159,435.1071347602913,182.32714335110919,0.0),c(995.1026573974029,477.7298744919117,728.0467938656747,275.21921304566894),c(2185.6981559083283,1482.9161531626255,1741.8866532609427,1862.4501839161173))
 targetgene="AATF"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -291,7 +291,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(640.8637498157573,602.0461987091378,307.2433176885473,192.82510352679924),c(354.23890758164566,280.5997032331675,204.4082852794442,275.79139436177223),c(779.0316224824572,932.3724316291956,778.5179754161547,905.1908420753603),c(624.6951689717818,554.0956165110648,370.96318439602834,558.4489645167836),c(1133.270530064103,1394.1187787217498,639.0913363829536,1131.2024619361487),c(423.32284391499564,412.0198174056636,224.59675789963623,426.84726181303336),c(296.91393913482335,829.3674772777797,489.5704610396565,1233.0507362025292),c(684.959879390236,546.9918265557948,394.30610586312537,566.4595029422292),c(440.96129574478715,630.461358530218,434.6830511035094,457.1728715665062),c(1108.2827233052317,1969.5257650986248,1066.2037102538911,1333.7546478367033))
 targetgene="AGBL5"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -326,7 +326,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(196.96271209933826,301.9110730989776,423.9579250240324,34.33087896619571),c(1106.8128523194157,1056.6887558464218,1743.1484327997048,807.3478370217025),c(748.1643317803222,488.3855594248168,239.73811236478022,477.77139894622366),c(1095.053884432888,882.6459019423052,837.8216137379688,365.05167967388104),c(677.6105244611563,316.11865300951774,613.8557456077136,819.3636446598709),c(1078.8853035889126,1609.008424868669,348.88204246769334,193.96946615900578),c(1437.533824128006,1095.759600600407,320.4920028455483,161.35513114111984),c(845.1758168441753,660.6524658401157,541.3034221288985,640.8430740356532),c(551.2016196809839,740.570102836904,1103.42620664737,622.5332719203489),c(601.1772331987264,900.4053768304803,735.6174710982467,754.1349746240991))
 targetgene="AHCTF1"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -361,7 +361,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(487.9971672908978,367.6211301852257,312.2904358435953,441.15179471561487),c(358.6485205390935,394.2603425174884,593.0363832181406,268.35303725242983),c(1743.266989177725,1980.1814500315297,837.1907239685878,281.5132075228048),c(1597.7497615819454,1465.1566782744503,1065.57282048451,992.7345834391593),c(119.05954985109253,378.2768151181308,185.48159219801417,128.7407961232339),c(986.2834314825072,745.8979453033566,328.0626800781203,302.11173490252224),c(523.2740709504807,694.3954681276485,336.89513684945433,597.9294753279087),c(1562.4728579223624,763.6574201915316,422.0652557158894,220.28980669975581),c(30.8672907021351,179.37069637056908,238.47633282601822,184.81456510135357),c(339.5401977234861,447.5387671820139,310.3977665354523,205.98527379717427))
 targetgene="ABT1"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -396,7 +396,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(492.4067802483456,221.99343610218943,309.7668767660713,102.99263689858714),c(243.9985836454489,239.7529109903646,130.59418226186713,174.51530141149487),c(734.9354929079785,673.0840982618383,620.7955330709046,470.9052231529845),c(1074.4756906314647,950.1319065173708,1100.902647569846,743.8357109342404),c(702.5983312200275,1010.5141211371663,1291.4313579229083,1017.3383800315995),c(1647.7253750996879,760.1055252138966,685.7771793171477,608.2287390177673),c(951.0065278229242,864.8864270541301,606.9159581445226,769.0116888427839),c(435.0818118015233,435.1071347602913,275.69882921949727,339.8757017653375),c(89.66213013477338,209.56180368046682,208.8245136651112,304.4004601669353),c(1328.7633711776252,1571.7135276035012,1122.983789498181,1356.6419004808338))
 targetgene="ADIRF"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -431,7 +431,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(216.0710349149457,289.479440677255,192.42137966120518,498.36992632594104),c(1127.391046120839,1198.764554951823,371.5940741654094,370.2013115188104),c(1111.2224652768637,1038.9292809582466,948.227323379644,922.3562815584581),c(1164.137820766238,1204.0923974182756,1686.9992433247955,2089.033985093009),c(48.505742531926586,248.63264843445216,665.5887066969557,248.8988725049189),c(501.2260061632414,387.1565525622184,436.5757204116524,314.69972385679404),c(1975.5066049366465,1797.2588586833258,1628.3264947723626,1289.6966864967521),c(213.13129294331378,376.5008676293133,404.4003421732214,482.921030791153),c(2012.2533795820452,1989.0611874756173,1064.3110409457481,431.9968936579627),c(264.57677744687226,353.4135502746856,442.25372833608145,191.6807408945927))
 targetgene="ABCF1"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -471,7 +471,7 @@
 # outputfile='__OUTPUT_FILE__'
 targetgenelist=c("ACRC","AGAP3","ADCK4","AHRR","ADRBK1","ADK","ADCK1","ADARB2","ACSS2","ADNP")
 # samplelabel=sub('.\\w+.\\w+$','',colnames(gstable)[startindex]);
-samplelabel='HL60.final,KBM7.final_vs_HL60.initial,KBM7.initial pos.'
+samplelabel='HL60_final,KBM7_final_vs_HL60_initial,KBM7_initial pos.'


 # You need to write some codes in front of this code:
@@ -577,7 +577,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(461.5394895462105,502.5931393353569,445.40817718298644,889.1697652244688),c(76.43329126242978,90.5733219296933,447.30084649112945,357.0411412484354),c(258.6972935036084,685.515730683561,533.7327448963265,560.7376897811967),c(232.23961575892122,681.9638357059259,275.69882921949727,467.47213525636494),c(1393.4376945535273,1472.2604682297203,1039.706339939889,532.7008052921368),c(2395.88970688001,2441.927797124084,2462.9936596634266,2461.5240218762324),c(495.34652221997754,605.5980936867728,1159.575396122279,1617.5565806239213),c(682.0201374186041,822.2636873225097,1572.1773052974536,1333.7546478367033),c(961.2956247236359,1097.5355480892247,959.5833392285019,905.1908420753603),c(1940.2297012770634,1289.3378768815162,942.5493154552149,1103.737758763192))
 targetgene="ACRC"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -612,7 +612,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(1387.5582106102636,1120.6228654438523,1214.4628060584262,1111.1761158725344),c(388.0459402554127,509.69692929062694,933.0859689144999,750.1297054113762),c(326.3113588511425,635.7892009966705,960.8451187672639,615.6670961271097),c(1328.7633711776252,1038.9292809582466,1346.3187678590552,1596.3858719281006),c(352.7690365958297,234.42506852391205,310.3977665354523,429.1359870774464),c(693.7791053051318,678.4119407282909,784.1959833405838,895.4637597016048),c(837.8264619150956,719.2587329710938,374.74852301231437,993.8789460713658),c(365.99787546817333,369.3970776740432,333.74068800254935,746.6966175147567),c(707.0079441774753,635.7892009966705,837.1907239685878,1465.3563505404536),c(486.5272963050818,673.0840982618383,784.8268731099647,734.6808098765882))
 targetgene="AGAP3"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -647,7 +647,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(830.4771069860158,864.8864270541301,1349.4732167059603,740.974804353724),c(1481.6299537024847,1994.38902994207,2044.082852794442,1810.9538654668238),c(1234.6916280854039,1299.9935618144214,1357.6747837079133,2232.6514954349277),c(224.89026082984142,188.25043381465665,700.2876440129107,81.24974688666317),c(812.8386551562243,845.3510046771374,946.334654071501,999.6007592323984),c(1978.4463469082782,1751.0842239740703,2659.2003779409174,2851.1794981425537),c(565.9003295391435,776.0890526132542,878.1985589783528,445.72924524444096),c(680.5502664327881,534.5601941340722,550.7667686696135,1025.9210997731484),c(161.68580843975528,333.87812789769293,275.0679394501163,465.18340999195186),c(2523.768482645998,2445.4796921017187,2153.226782897355,1516.8526689897471))
 targetgene="ADCK4"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -682,7 +682,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(345.4196816667499,163.38716897121142,474.42910657451245,481.2044868428432),c(415.9734889859159,372.9489726516783,212.6098522813972,349.03060282298975),c(1.469870985815957,83.46953197442323,0.0,62.9399447713588),c(351.29916561001374,150.9555365494888,288.9475143764983,416.54799812317464),c(561.4907165816957,170.49095892648148,199.3611671243962,411.97054759434855),c(251.34793857452865,221.99343610218943,1564.6066280648815,1502.5481360871656),c(736.4053638937945,893.3015868752103,1114.782222496228,459.46159683091923),c(338.07032673767014,607.3740411755903,378.5338616286004,65.22867003577186),c(1230.2820151279561,525.6804566899846,837.1907239685878,945.2435342025885))
 targetgene="AHRR"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -717,7 +717,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(371.87735941143717,877.3180594758527,2395.4884543396593,1564.9158995424211),c(1109.7525942910477,1138.3823403320275,970.308465307979,999.0285779162951),c(1462.5216308868773,1209.420239884728,1537.4783679814984,1519.14139425416),c(586.4785233405669,987.4268037825386,743.8190381001997,1312.0117578247794),c(1018.6205931704583,717.4827854822763,1070.619938639558,1144.3626322065236),c(1269.9685317449869,1212.9721348623632,1591.1039983788835,1624.9949377332637),c(1321.4140162485455,1795.4829111945082,1478.8056194290655,1237.056005415252),c(908.3802692342615,832.9193722554148,1639.6825106212207,1268.5259778009315),c(923.078979092421,758.3295777250792,1479.4365091984464,1275.964334910274),c(680.5502664327881,634.013253507853,318.5993335374053,631.1159916618979))
 targetgene="ADRBK1"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -752,7 +752,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(1472.810727787589,1829.225913482041,1263.0413183007631,1315.444845721399),c(208.7216799858659,65.71005708624807,292.1019632234033,350.17496545519623),c(1011.2712382413785,1166.7975001531076,652.9709113093356,860.5606994193058),c(557.0811036242477,685.515730683561,875.0441101314478,1019.6271052960126),c(363.0581334965414,825.8155823001447,736.8792506370087,349.602784139093),c(1505.14788947554,451.09066215964896,653.6018010787167,991.0180394908496),c(198.43258308515422,28.41515982108025,249.83234867487624,114.43626322065236),c(438.02155377315523,74.58979453033565,254.87946682992424,231.16125170571777),c(804.0194292413286,472.4020320254591,1336.2245315489592,1203.2973077651598),c(454.19013461713075,490.1615069136343,896.4943622904019,685.4732166917076))
 targetgene="ADK"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -787,7 +787,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(662.9118146029966,1008.7381736483488,1101.533537339227,1694.8010582978616),c(1547.7741480642028,1965.9738701209897,1869.9572764452857,2353.9539344488194),c(1459.5818889152454,1179.2291325748304,1296.4784760779562,1222.1792911965672),c(1193.5352404825571,1355.0479339677643,1622.0175970785526,1905.9359639399652),c(868.6937526172306,701.4992580829187,720.4761166331027,603.6512884889412),c(798.1399452980647,768.9852626579842,1478.8056194290655,1756.0244591209105),c(1168.5474337236858,907.5091667857504,879.4603385171149,977.8578692204745),c(809.8989131845924,687.2916781723785,678.8373918539567,865.7103312642352),c(1246.4505959719315,753.0017352586266,1301.5255942330043,1264.5207085882087),c(826.0674940285679,797.4004224790644,977.8791425405509,2066.7189137649816))
 targetgene="ADCK1"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -822,7 +822,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(1863.7964100146337,1585.9211075140413,1761.4442361117538,1464.211987908247),c(742.2848478370584,598.4943037315028,943.8110949939769,820.5080072920774),c(1568.3523418656262,2083.1864043829455,1810.6536381234716,1887.6261618246608),c(1018.6205931704583,513.248824268262,679.4682816233377,824.5132765048003),c(1140.6198849931827,1191.6607649965529,880.0912282864958,977.8578692204745),c(135.22813069506805,118.98848175077354,351.40560154521734,399.95473995618005),c(665.8515565746286,701.4992580829187,986.7115993118849,746.6966175147567),c(418.9132309575478,300.1351256101601,376.6411923204574,645.4205245644794),c(561.4907165816957,543.4399315781598,881.9838975946388,580.7640358448108),c(442.4311667306031,229.0972260574595,395.5678854018874,651.142337725512))
 targetgene="ADARB2"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -857,7 +857,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(734.9354929079785,358.74139274113816,541.9343118982795,378.7840312603593),c(595.2977492554626,591.3905137762326,1061.787481868224,887.4532212761591),c(1655.0747300287676,943.0281165621008,1069.358159100796,2038.1098479598186),c(626.1650399575977,884.4218494311227,517.3296108924205,858.2719741548927),c(680.5502664327881,747.673892792174,533.1018551269456,1016.194017399393),c(662.9118146029966,777.8650001020718,864.9498738213518,787.3214909580882),c(880.4527205037583,621.5816210861304,671.8976043907657,1040.7978139918332),c(94.07174309222125,447.5387671820139,711.6436598617687,927.5059134033875),c(399.80490814194036,806.280159923152,1147.58849050404,1059.1076161071376),c(698.1887182625796,531.0082991564371,504.0809257354195,347.8862401907832))
 targetgene="ACSS2"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
@@ -892,7 +892,7 @@
 # Do not modify the variables beginning with "__"
 targetmat=list(c(408.62413405683606,523.9045092011671,483.89245311522745,701.494293542599),c(1805.0015705819953,1434.9655709645526,1712.2348341000356,2152.546111180471),c(3017.64513388016,2642.609863360463,1834.6274493599499,3573.2723190648703),c(1649.1952460855039,783.1928425685244,773.4708572611067,1332.0381038883936),c(959.82575373782,1397.6706736993847,1429.5962174173474,2811.126806015325),c(495.34652221997754,301.9110730989776,336.89513684945433,555.015876620164),c(1491.9190506031964,1331.9606166131366,2087.614246881731,1983.1804416139055),c(429.2023278582595,889.7496918975753,567.8007924429005,1132.9190058844583),c(427.7324568724435,573.6310388880576,655.4944703868597,899.4690289143276),c(690.8393633334998,767.2093151691668,1040.33722970927,993.3067647552625))
 targetgene="ADNP"
-collabel=c("HL60.initial","KBM7.initial","HL60.final","KBM7.final")
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")

 # set up color using RColorBrewer
 #library(RColorBrewer)
--- a/test-data/out.test.log.txt	Sat Feb 17 10:41:26 2018 -0500
+++ b/test-data/out.test.log.txt	Wed Apr 04 11:03:29 2018 -0400
@@ -1,112 +1,109 @@
-INFO  @ Mon, 12 Feb 2018 03:40:01: Parameters: /home/maria/miniconda3/envs/mulled-v1-b1e6893952d2d7e4d51a13d040adcd7bea052bfdc57a24d59056014db875e749/bin/mageck test -k /tmp/tmp0xS0Jl/files/000/dataset_21.dat -t HL60.final,KBM7.final -c HL60.initial,KBM7.initial -n output --normcounts-to-file --pdf-report --norm-method median --gene-test-fdr-threshold 0.25 --adjust-method fdr --sort-criteria neg --remove-zero none --gene-lfc-method median
-INFO  @ Mon, 12 Feb 2018 03:40:01: Welcome to MAGeCK v0.5.7. Command: test
-INFO  @ Mon, 12 Feb 2018 03:40:01: Loading count table from /tmp/tmp0xS0Jl/files/000/dataset_21.dat
-INFO  @ Mon, 12 Feb 2018 03:40:01: Processing 1 lines..
-DEBUG @ Mon, 12 Feb 2018 03:40:01: Parsing error in line 1 (usually the header line). Skip this line.
-INFO  @ Mon, 12 Feb 2018 03:40:01: Loaded 999 records.
-INFO  @ Mon, 12 Feb 2018 03:40:01: Loading R template file: /home/maria/miniconda3/envs/mulled-v1-b1e6893952d2d7e4d51a13d040adcd7bea052bfdc57a24d59056014db875e749/lib/python3.6/site-packages/mageck/plot_template.RTemplate.
-INFO  @ Mon, 12 Feb 2018 03:40:01: Loading R template file: /home/maria/miniconda3/envs/mulled-v1-b1e6893952d2d7e4d51a13d040adcd7bea052bfdc57a24d59056014db875e749/lib/python3.6/site-packages/mageck/plot_template_indvgene.RTemplate.
-INFO  @ Mon, 12 Feb 2018 03:40:01: Loading Rnw template file: /home/maria/miniconda3/envs/mulled-v1-b1e6893952d2d7e4d51a13d040adcd7bea052bfdc57a24d59056014db875e749/lib/python3.6/site-packages/mageck/plot_template.Rnw.
-DEBUG @ Mon, 12 Feb 2018 03:40:01: Setting up the visualization module...
-DEBUG @ Mon, 12 Feb 2018 03:40:01: Given sample labels: HL60.final,KBM7.final
-DEBUG @ Mon, 12 Feb 2018 03:40:01: Converted index: 2 3
-INFO  @ Mon, 12 Feb 2018 03:40:01: Treatment samples:HL60.final,KBM7.final
-INFO  @ Mon, 12 Feb 2018 03:40:01: Treatment sample index:2,3
-DEBUG @ Mon, 12 Feb 2018 03:40:01: Given sample labels: HL60.initial,KBM7.initial
-DEBUG @ Mon, 12 Feb 2018 03:40:01: Converted index: 0 1
-INFO  @ Mon, 12 Feb 2018 03:40:01: Control samples:HL60.initial,KBM7.initial
-INFO  @ Mon, 12 Feb 2018 03:40:01: Control sample index:0,1
-DEBUG @ Mon, 12 Feb 2018 03:40:01: Initial (total) size factor: 1.6666455325878438 2.027372749328462 0.7198064117880387 0.6589869375844738
-DEBUG @ Mon, 12 Feb 2018 03:40:01: Median factor: 1.469870985815957 1.7759474888175155 0.6308897693810006 0.5721813161032618
-INFO  @ Mon, 12 Feb 2018 03:40:01: Final size factor: 1.469870985815957 1.7759474888175155 0.6308897693810006 0.5721813161032618
-INFO  @ Mon, 12 Feb 2018 03:40:01: Writing normalized read counts to output.normalized.txt
-DEBUG @ Mon, 12 Feb 2018 03:40:01: Adjusted model: 1.1175084644498339	3.4299551007579927
-INFO  @ Mon, 12 Feb 2018 03:40:01: Raw variance calculation: 0.5 for control, 0.5 for treatment
-INFO  @ Mon, 12 Feb 2018 03:40:01: Adjusted variance calculation: 0.3333333333333333 for raw variance, 0.6666666666666667 for modeling
-INFO  @ Mon, 12 Feb 2018 03:40:01: Use qnorm to reversely calculate sgRNA scores ...
-DEBUG @ Mon, 12 Feb 2018 03:40:01: lower test FDR cutoff: 0.3283283283283283
-DEBUG @ Mon, 12 Feb 2018 03:40:01: higher test FDR cutoff: 0.34534534534534533
-INFO  @ Mon, 12 Feb 2018 03:40:01: Running command: RRA -i output.plow.txt -o output.gene.low.txt -p 0.3283283283283283 --skip-gene NA --skip-gene na
-INFO  @ Mon, 12 Feb 2018 03:40:02: Command message:
-INFO  @ Mon, 12 Feb 2018 03:40:02:   Welcome to RRA v 0.5.7.
-INFO  @ Mon, 12 Feb 2018 03:40:02:   Skipping gene NA for permutation ...
-INFO  @ Mon, 12 Feb 2018 03:40:02:   Skipping gene na for permutation ...
-INFO  @ Mon, 12 Feb 2018 03:40:02:   Reading input file...
-INFO  @ Mon, 12 Feb 2018 03:40:02:   Summary: 999 sgRNAs, 100 genes, 1 lists; skipped sgRNAs:0
-INFO  @ Mon, 12 Feb 2018 03:40:02:   Computing lo-values for each group...
-INFO  @ Mon, 12 Feb 2018 03:40:02:   Computing false discovery rate...
-INFO  @ Mon, 12 Feb 2018 03:40:02:   Increase the number of permutations to 1001 to get precise p values. To avoid this, use the --permutation option.
-INFO  @ Mon, 12 Feb 2018 03:40:02:   Permuting genes with 9 sgRNAs...
-INFO  @ Mon, 12 Feb 2018 03:40:02:   Permuting genes with 10 sgRNAs...
-INFO  @ Mon, 12 Feb 2018 03:40:02:   Number of genes under FDR adjustment: 100
-INFO  @ Mon, 12 Feb 2018 03:40:02:   Saving to output file...
-INFO  @ Mon, 12 Feb 2018 03:40:02:   RRA completed.
-INFO  @ Mon, 12 Feb 2018 03:40:02:
-INFO  @ Mon, 12 Feb 2018 03:40:02: End command message.
-INFO  @ Mon, 12 Feb 2018 03:40:02: Running command: RRA -i output.phigh.txt -o output.gene.high.txt -p 0.34534534534534533 --skip-gene NA --skip-gene na
-INFO  @ Mon, 12 Feb 2018 03:40:03: Command message:
-INFO  @ Mon, 12 Feb 2018 03:40:03:   Welcome to RRA v 0.5.7.
-INFO  @ Mon, 12 Feb 2018 03:40:03:   Skipping gene NA for permutation ...
-INFO  @ Mon, 12 Feb 2018 03:40:03:   Skipping gene na for permutation ...
-INFO  @ Mon, 12 Feb 2018 03:40:03:   Reading input file...
-INFO  @ Mon, 12 Feb 2018 03:40:03:   Summary: 999 sgRNAs, 100 genes, 1 lists; skipped sgRNAs:0
-INFO  @ Mon, 12 Feb 2018 03:40:03:   Computing lo-values for each group...
-INFO  @ Mon, 12 Feb 2018 03:40:03:   Computing false discovery rate...
-INFO  @ Mon, 12 Feb 2018 03:40:03:   Increase the number of permutations to 1001 to get precise p values. To avoid this, use the --permutation option.
-INFO  @ Mon, 12 Feb 2018 03:40:03:   Permuting genes with 9 sgRNAs...
-INFO  @ Mon, 12 Feb 2018 03:40:03:   Permuting genes with 10 sgRNAs...
-INFO  @ Mon, 12 Feb 2018 03:40:03:   Number of genes under FDR adjustment: 100
-INFO  @ Mon, 12 Feb 2018 03:40:03:   Saving to output file...
-INFO  @ Mon, 12 Feb 2018 03:40:03:   RRA completed.
-INFO  @ Mon, 12 Feb 2018 03:40:03:
-INFO  @ Mon, 12 Feb 2018 03:40:03: End command message.
-DEBUG @ Mon, 12 Feb 2018 03:40:03: Sorting the merged items by negative selection...
-INFO  @ Mon, 12 Feb 2018 03:40:03: Loading top 10 genes from output.gene.low.txt: ACIN1,ACTR8,AHCY,ACLY,AATF,AGBL5,AHCTF1,ABT1,ADIRF,ABCF1
-DEBUG @ Mon, 12 Feb 2018 03:40:03: Column index:3
-INFO  @ Mon, 12 Feb 2018 03:40:03: Loading top 10 genes from output.gene.high.txt: ACRC,AGAP3,ADCK4,AHRR,ADRBK1,ADK,ADCK1,ADARB2,ACSS2,ADNP
-DEBUG @ Mon, 12 Feb 2018 03:40:03: Column index:9
-INFO  @ Mon, 12 Feb 2018 03:40:03: Running command: rm output.plow.txt
-INFO  @ Mon, 12 Feb 2018 03:40:03: Running command: rm output.phigh.txt
-INFO  @ Mon, 12 Feb 2018 03:40:03: Running command: rm output.gene.low.txt
-INFO  @ Mon, 12 Feb 2018 03:40:03: Running command: rm output.gene.high.txt
-INFO  @ Mon, 12 Feb 2018 03:40:03: Running command: cd ./; Rscript output.R
-INFO  @ Mon, 12 Feb 2018 03:40:04: Command message:
-INFO  @ Mon, 12 Feb 2018 03:40:04:   null device
-INFO  @ Mon, 12 Feb 2018 03:40:04:             1
-INFO  @ Mon, 12 Feb 2018 03:40:04:   Writing to file output_summary.tex
-INFO  @ Mon, 12 Feb 2018 03:40:04:   Processing code chunks with options ...
-INFO  @ Mon, 12 Feb 2018 03:40:04:    1 : keep.source term verbatim (label = funcdef, output_summary.Rnw:27)
-INFO  @ Mon, 12 Feb 2018 03:40:04:    2 : keep.source term tex (label = tab1, output_summary.Rnw:37)
-INFO  @ Mon, 12 Feb 2018 03:40:04:    3 : keep.source term verbatim (output_summary.Rnw:77)
-INFO  @ Mon, 12 Feb 2018 03:40:04:    4 : keep.source term verbatim pdf  (output_summary.Rnw:83)
-INFO  @ Mon, 12 Feb 2018 03:40:04:    5 : keep.source term verbatim pdf  (output_summary.Rnw:201)
-INFO  @ Mon, 12 Feb 2018 03:40:04:    6 : keep.source term verbatim pdf  (output_summary.Rnw:345)
-INFO  @ Mon, 12 Feb 2018 03:40:04:    7 : keep.source term verbatim pdf  (output_summary.Rnw:489)
-INFO  @ Mon, 12 Feb 2018 03:40:04:    8 : keep.source term verbatim (output_summary.Rnw:567)
-INFO  @ Mon, 12 Feb 2018 03:40:04:    9 : keep.source term verbatim pdf  (output_summary.Rnw:573)
-INFO  @ Mon, 12 Feb 2018 03:40:04:   10 : keep.source term verbatim pdf  (output_summary.Rnw:691)
-INFO  @ Mon, 12 Feb 2018 03:40:04:   11 : keep.source term verbatim pdf  (output_summary.Rnw:835)
-INFO  @ Mon, 12 Feb 2018 03:40:04:   12 : keep.source term verbatim pdf  (output_summary.Rnw:979)
-INFO  @ Mon, 12 Feb 2018 03:40:04:
-INFO  @ Mon, 12 Feb 2018 03:40:04:   You can now run (pdf)latex on ‘output_summary.tex’
-INFO  @ Mon, 12 Feb 2018 03:40:04:   Error in texi2dvi("output_summary.tex", pdf = TRUE) :
-INFO  @ Mon, 12 Feb 2018 03:40:04:     pdflatex is not available
-INFO  @ Mon, 12 Feb 2018 03:40:04:   Execution halted
-INFO  @ Mon, 12 Feb 2018 03:40:04:
-INFO  @ Mon, 12 Feb 2018 03:40:04: End command message.
-INFO  @ Mon, 12 Feb 2018 03:40:04: Running command: cd ./; rm -rf output_summary-*.pdf
-INFO  @ Mon, 12 Feb 2018 03:40:04: Command message:
-INFO  @ Mon, 12 Feb 2018 03:40:04:
-INFO  @ Mon, 12 Feb 2018 03:40:04: End command message.
-INFO  @ Mon, 12 Feb 2018 03:40:04: Running command: cd ./; rm -rf output_summary.aux
-INFO  @ Mon, 12 Feb 2018 03:40:04: Command message:
-INFO  @ Mon, 12 Feb 2018 03:40:04:
-INFO  @ Mon, 12 Feb 2018 03:40:04: End command message.
-INFO  @ Mon, 12 Feb 2018 03:40:04: Running command: cd ./; rm -rf output_summary.tex
-INFO  @ Mon, 12 Feb 2018 03:40:04: Command message:
-INFO  @ Mon, 12 Feb 2018 03:40:04:
-INFO  @ Mon, 12 Feb 2018 03:40:04: End command message.
-INFO  @ Mon, 12 Feb 2018 03:40:04: Running command: cd ./; rm -rf output_summary.toc
-INFO  @ Mon, 12 Feb 2018 03:40:04: Command message:
-INFO  @ Mon, 12 Feb 2018 03:40:04:
-INFO  @ Mon, 12 Feb 2018 03:40:04: End command message.
+INFO  @ Mon, 26 Mar 2018 08:37:53: Parameters: /Users/doylemaria/miniconda3/envs/mulled-v1-9ee130591ca78526e74a59d8d6dc03cb7db20645470975762936caeac62972dc/bin/mageck test -k /private/var/folders/zn/m_qvr9zd7tq0wdtsbq255f8xypj_zg/T/tmpTX65kA/files/000/dataset_4.dat -t HL60_final,KBM7_final -c HL60_initial,KBM7_initial -n output --normcounts-to-file --pdf-report --norm-method median --adjust-method fdr --sort-criteria neg --remove-zero both --gene-lfc-method median
+INFO  @ Mon, 26 Mar 2018 08:37:53: Welcome to MAGeCK v0.5.7. Command: test
+INFO  @ Mon, 26 Mar 2018 08:37:53: Loading count table from /private/var/folders/zn/m_qvr9zd7tq0wdtsbq255f8xypj_zg/T/tmpTX65kA/files/000/dataset_4.dat
+INFO  @ Mon, 26 Mar 2018 08:37:53: Processing 1 lines..
+DEBUG @ Mon, 26 Mar 2018 08:37:53: Parsing error in line 1 (usually the header line). Skip this line.
+INFO  @ Mon, 26 Mar 2018 08:37:53: Loaded 999 records.
+INFO  @ Mon, 26 Mar 2018 08:37:53: Loading R template file: /Users/doylemaria/miniconda3/envs/mulled-v1-9ee130591ca78526e74a59d8d6dc03cb7db20645470975762936caeac62972dc/lib/python3.6/site-packages/mageck/plot_template.RTemplate.
+INFO  @ Mon, 26 Mar 2018 08:37:53: Loading R template file: /Users/doylemaria/miniconda3/envs/mulled-v1-9ee130591ca78526e74a59d8d6dc03cb7db20645470975762936caeac62972dc/lib/python3.6/site-packages/mageck/plot_template_indvgene.RTemplate.
+INFO  @ Mon, 26 Mar 2018 08:37:53: Loading Rnw template file: /Users/doylemaria/miniconda3/envs/mulled-v1-9ee130591ca78526e74a59d8d6dc03cb7db20645470975762936caeac62972dc/lib/python3.6/site-packages/mageck/plot_template.Rnw.
+DEBUG @ Mon, 26 Mar 2018 08:37:53: Setting up the visualization module...
+DEBUG @ Mon, 26 Mar 2018 08:37:53: Given sample labels: HL60_final,KBM7_final
+DEBUG @ Mon, 26 Mar 2018 08:37:53: Converted index: 2 3
+INFO  @ Mon, 26 Mar 2018 08:37:53: Treatment samples:HL60_final,KBM7_final
+INFO  @ Mon, 26 Mar 2018 08:37:53: Treatment sample index:2,3
+DEBUG @ Mon, 26 Mar 2018 08:37:53: Given sample labels: HL60_initial,KBM7_initial
+DEBUG @ Mon, 26 Mar 2018 08:37:53: Converted index: 0 1
+INFO  @ Mon, 26 Mar 2018 08:37:53: Control samples:HL60_initial,KBM7_initial
+INFO  @ Mon, 26 Mar 2018 08:37:53: Control sample index:0,1
+DEBUG @ Mon, 26 Mar 2018 08:37:53: Initial (total) size factor: 1.6666455325878438 2.027372749328462 0.7198064117880387 0.6589869375844738
+DEBUG @ Mon, 26 Mar 2018 08:37:53: Median factor: 1.469870985815957 1.7759474888175155 0.6308897693810006 0.5721813161032618
+INFO  @ Mon, 26 Mar 2018 08:37:53: Final size factor: 1.469870985815957 1.7759474888175155 0.6308897693810006 0.5721813161032618
+INFO  @ Mon, 26 Mar 2018 08:37:53: Writing normalized read counts to output.normalized.txt
+DEBUG @ Mon, 26 Mar 2018 08:37:53: Adjusted model: 1.1175084644498339	3.4299551007579927
+INFO  @ Mon, 26 Mar 2018 08:37:53: Raw variance calculation: 0.5 for control, 0.5 for treatment
+INFO  @ Mon, 26 Mar 2018 08:37:53: Adjusted variance calculation: 0.3333333333333333 for raw variance, 0.6666666666666667 for modeling
+INFO  @ Mon, 26 Mar 2018 08:37:53: Use qnorm to reversely calculate sgRNA scores ...
+DEBUG @ Mon, 26 Mar 2018 08:37:53: lower test FDR cutoff: 0.3283283283283283
+DEBUG @ Mon, 26 Mar 2018 08:37:53: higher test FDR cutoff: 0.34534534534534533
+INFO  @ Mon, 26 Mar 2018 08:37:53: Running command: RRA -i output.plow.txt -o output.gene.low.txt -p 0.3283283283283283 --skip-gene NA --skip-gene na
+INFO  @ Mon, 26 Mar 2018 08:37:53: Command message:
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Welcome to RRA v 0.5.7.
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Skipping gene NA for permutation ...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Skipping gene na for permutation ...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Reading input file...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Summary: 999 sgRNAs, 100 genes, 1 lists; skipped sgRNAs:0
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Computing lo-values for each group...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Computing false discovery rate...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Increase the number of permutations to 1001 to get precise p values. To avoid this, use the --permutation option.
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Permuting genes with 9 sgRNAs...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Permuting genes with 10 sgRNAs...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Number of genes under FDR adjustment: 100
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Saving to output file...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   RRA completed.
+INFO  @ Mon, 26 Mar 2018 08:37:53:
+INFO  @ Mon, 26 Mar 2018 08:37:53: End command message.
+INFO  @ Mon, 26 Mar 2018 08:37:53: Running command: RRA -i output.phigh.txt -o output.gene.high.txt -p 0.34534534534534533 --skip-gene NA --skip-gene na
+INFO  @ Mon, 26 Mar 2018 08:37:53: Command message:
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Welcome to RRA v 0.5.7.
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Skipping gene NA for permutation ...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Skipping gene na for permutation ...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Reading input file...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Summary: 999 sgRNAs, 100 genes, 1 lists; skipped sgRNAs:0
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Computing lo-values for each group...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Computing false discovery rate...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Increase the number of permutations to 1001 to get precise p values. To avoid this, use the --permutation option.
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Permuting genes with 9 sgRNAs...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Permuting genes with 10 sgRNAs...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Number of genes under FDR adjustment: 100
+INFO  @ Mon, 26 Mar 2018 08:37:53:   Saving to output file...
+INFO  @ Mon, 26 Mar 2018 08:37:53:   RRA completed.
+INFO  @ Mon, 26 Mar 2018 08:37:53:
+INFO  @ Mon, 26 Mar 2018 08:37:53: End command message.
+DEBUG @ Mon, 26 Mar 2018 08:37:53: Sorting the merged items by negative selection...
+INFO  @ Mon, 26 Mar 2018 08:37:53: Loading top 10 genes from output.gene.low.txt: ACIN1,ACTR8,AHCY,ACLY,AATF,AGBL5,AHCTF1,ABT1,ADIRF,ABCF1
+DEBUG @ Mon, 26 Mar 2018 08:37:53: Column index:3
+INFO  @ Mon, 26 Mar 2018 08:37:53: Loading top 10 genes from output.gene.high.txt: ACRC,AGAP3,ADCK4,AHRR,ADRBK1,ADK,ADCK1,ADARB2,ACSS2,ADNP
+DEBUG @ Mon, 26 Mar 2018 08:37:53: Column index:9
+INFO  @ Mon, 26 Mar 2018 08:37:53: Running command: rm output.plow.txt
+INFO  @ Mon, 26 Mar 2018 08:37:53: Running command: rm output.phigh.txt
+INFO  @ Mon, 26 Mar 2018 08:37:54: Running command: rm output.gene.low.txt
+INFO  @ Mon, 26 Mar 2018 08:37:54: Running command: rm output.gene.high.txt
+INFO  @ Mon, 26 Mar 2018 08:37:54: Running command: cd ./; Rscript output.R
+INFO  @ Mon, 26 Mar 2018 08:37:59: Command message:
+INFO  @ Mon, 26 Mar 2018 08:37:59:   null device
+INFO  @ Mon, 26 Mar 2018 08:37:59:             1
+INFO  @ Mon, 26 Mar 2018 08:37:59:   Writing to file output_summary.tex
+INFO  @ Mon, 26 Mar 2018 08:37:59:   Processing code chunks with options ...
+INFO  @ Mon, 26 Mar 2018 08:37:59:    1 : keep.source term verbatim (label = funcdef, output_summary.Rnw:27)
+INFO  @ Mon, 26 Mar 2018 08:37:59:    2 : keep.source term tex (label = tab1, output_summary.Rnw:37)
+INFO  @ Mon, 26 Mar 2018 08:37:59:    3 : keep.source term verbatim (output_summary.Rnw:77)
+INFO  @ Mon, 26 Mar 2018 08:37:59:    4 : keep.source term verbatim pdf  (output_summary.Rnw:83)
+INFO  @ Mon, 26 Mar 2018 08:37:59:    5 : keep.source term verbatim pdf  (output_summary.Rnw:201)
+INFO  @ Mon, 26 Mar 2018 08:37:59:    6 : keep.source term verbatim pdf  (output_summary.Rnw:345)
+INFO  @ Mon, 26 Mar 2018 08:37:59:    7 : keep.source term verbatim pdf  (output_summary.Rnw:489)
+INFO  @ Mon, 26 Mar 2018 08:37:59:    8 : keep.source term verbatim (output_summary.Rnw:567)
+INFO  @ Mon, 26 Mar 2018 08:37:59:    9 : keep.source term verbatim pdf  (output_summary.Rnw:573)
+INFO  @ Mon, 26 Mar 2018 08:37:59:   10 : keep.source term verbatim pdf  (output_summary.Rnw:691)
+INFO  @ Mon, 26 Mar 2018 08:37:59:   11 : keep.source term verbatim pdf  (output_summary.Rnw:835)
+INFO  @ Mon, 26 Mar 2018 08:37:59:   12 : keep.source term verbatim pdf  (output_summary.Rnw:979)
+INFO  @ Mon, 26 Mar 2018 08:37:59:
+INFO  @ Mon, 26 Mar 2018 08:37:59:   You can now run (pdf)latex on ‘output_summary.tex’
+INFO  @ Mon, 26 Mar 2018 08:37:59:
+INFO  @ Mon, 26 Mar 2018 08:37:59: End command message.
+INFO  @ Mon, 26 Mar 2018 08:37:59: Running command: cd ./; rm -rf output_summary-*.pdf
+INFO  @ Mon, 26 Mar 2018 08:37:59: Command message:
+INFO  @ Mon, 26 Mar 2018 08:37:59:
+INFO  @ Mon, 26 Mar 2018 08:37:59: End command message.
+INFO  @ Mon, 26 Mar 2018 08:37:59: Running command: cd ./; rm -rf output_summary.aux
+INFO  @ Mon, 26 Mar 2018 08:37:59: Command message:
+INFO  @ Mon, 26 Mar 2018 08:37:59:
+INFO  @ Mon, 26 Mar 2018 08:37:59: End command message.
+INFO  @ Mon, 26 Mar 2018 08:37:59: Running command: cd ./; rm -rf output_summary.tex
+INFO  @ Mon, 26 Mar 2018 08:37:59: Command message:
+INFO  @ Mon, 26 Mar 2018 08:37:59:
+INFO  @ Mon, 26 Mar 2018 08:37:59: End command message.
+INFO  @ Mon, 26 Mar 2018 08:37:59: Running command: cd ./; rm -rf output_summary.toc
+INFO  @ Mon, 26 Mar 2018 08:37:59: Command message:
+INFO  @ Mon, 26 Mar 2018 08:37:59:
+INFO  @ Mon, 26 Mar 2018 08:37:59: End command message.
--- a/test-data/out.test.normalized.txt	Sat Feb 17 10:41:26 2018 -0500
+++ b/test-data/out.test.normalized.txt	Wed Apr 04 11:03:29 2018 -0400
@@ -1,4 +1,4 @@
-sgRNA	Gene	HL60.initial	KBM7.initial	HL60.final	KBM7.final
+sgRNA	Gene	HL60_initial	KBM7_initial	HL60_final	KBM7_final
 A1CF_m52595977	A1CF	313.08251997879887	486.6096119359992	557.0756663634236	100.13173031807082
 A1CF_m52596017	A1CF	432.1420698298914	731.6903653928164	980.402701618075	1081.994868751268
 A1CF_m52596056	A1CF	618.8156850285179	653.5486758848457	357.0836094696463	434.28561892237576
Binary file test-data/out.test.pdf has changed
Binary file test-data/out.test.plots.pdf has changed
Binary file test-data/out.test.report.pdf has changed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/output.count_normalized.txt	Wed Apr 04 11:03:29 2018 -0400
@@ -0,0 +1,2551 @@
+sgRNA	Gene	test1_fastq_gz
+s_47512	RNF111	2.0
+s_24835	HCFC1R1	2.0
+s_14784	CYP4B1	8.0
+s_51146	SLC18A1	2.0
+s_58960	TRIM5	2.0
+s_48256	RPRD2	2.0
+s_30297	KRTAP5-5	2.0
+s_14555	CYB5B	2.0
+s_39959	PAAF1	2.0
+s_45293	PUF60	2.0
+s_49358	SCN8A	2.0
+s_64995	ZYG11A	2.0
+s_4029	ASTE1	2.0
+s_45554	R3HDML	2.0
+s_34264	MMRN1	2.0
+s_37459	NOL6	2.0
+s_23990	GPX7	2.0
+s_20268	FANCC	2.0
+s_14157	CTLA4	2.0
+s_36773	NEURL4	36.0
+s_18804	ETFB	2.0
+s_782	ACSS1	2.0
+s_18272	ENPP2	2.0
+s_46620	RCN1	2.0
+s_55436	TAS2R3	2.0
+s_57947	TMPRSS2	2.0
+s_6438	C14orf159	2.0
+s_33846	MGST2	2.0
+s_16328	DNAH6	2.0
+s_17875	EIF4G1	2.0
+s_2305	ANAPC11	2.0
+s_2500	ANKRD2	2.0
+s_82	AARSD1	2.0
+s_55329	TAL1	2.0
+s_57926	TMPRSS11E	16.0
+s_38414	NUP98	8.0
+s_50044	SERPINF1	2.0
+s_9257	CASR	2.0
+s_63396	ZNF182	2.0
+s_56478	THBS3	2.0
+s_17191	DYRK1A	2.0
+s_11988	CIR1	2.0
+s_43313	PPARD	2.0
+s_44681	PSMA4	2.0
+s_10387	CD320	2.0
+s_64869	ZPBP	2.0
+s_54385	STK17B	2.0
+s_25423	HIST1H4D	2.0
+s_54172	ST8SIA4	18.0
+s_1161	ADCY10	2.0
+s_29184	KIAA0913	2.0
+s_42977	POLD3	2.0
+s_49449	SCUBE1	2.0
+s_24181	GRM4	2.0
+s_52507	SMARCA5	2.0
+s_28674	KCNJ10	2.0
+s_61074	VAMP2	8.0
+s_3954	ASIC2	2.0
+s_2385	ANK1	2.0
+s_18397	EPDR1	2.0
+s_18377	EPB41L4B	2.0
+s_34580	MRAP2	2.0
+s_48676	RUFY3	20.0
+s_691	ACP1	2.0
+s_30460	LAMP2	2.0
+s_42637	PLRG1	2.0
+s_12695	CNOT6	2.0
+s_33316	MECOM	4.0
+s_35081	MSRB2	2.0
+s_58512	TPD52L2	2.0
+s_19912	FAM22F	2.0
+s_45517	QSOX2	2.0
+s_56705	TINAG	2.0
+s_10946	CDKL5	2.0
+s_57473	TMEM211	4.0
+s_57657	TMEM44	2.0
+s_43200	POT1	2.0
+s_19436	FAM135A	2.0
+s_184	ABCB9	2.0
+s_30171	KRT84	2.0
+s_44758	PSMC3IP	2.0
+s_48313	RPS3	2.0
+s_58142	TNFSF12	12.0
+s_59718	TTLL6	14.0
+s_9725	CCDC43	2.0
+s_5135	BCKDHA	2.0
+s_36539	NDUFC2	2.0
+s_27251	IL27RA	2.0
+s_48939	SAMD10	2.0
+s_27343	IL5RA	2.0
+s_28386	KANK2	2.0
+s_27610	INSRR	2.0
+s_2769	AOC3	4.0
+s_58632	TRA2B	24.0
+s_6674	C16orf86	2.0
+s_22902	GJD4	2.0
+s_48278	RPS15A	2.0
+s_61998	WIPF2	2.0
+s_4937	BAIAP3	4.0
+s_54471	STOML1	4.0
+s_19157	FABP12	2.0
+s_5434	BIN1	4.0
+s_42042	PIP5K1A	2.0
+s_7794	C3orf18	2.0
+s_54846	SVIL	2.0
+s_62273	XPA	2.0
+s_45859	RACGAP1	2.0
+s_53626	SPOCK3	2.0
+s_43295	PPAP2C	14.0
+s_11788	CHRDL1	4.0
+s_50636	SHQ1	2.0
+s_16705	DPF1	2.0
+s_39741	OTOF	2.0
+s_27505	INHBE	2.0
+s_707	ACPL2	2.0
+s_15418	DDX3Y	12.0
+s_56018	TEAD4	2.0
+s_44367	PRR12	2.0
+s_25875	HOXB5	2.0
+s_49360	SCN9A	2.0
+s_16244	DMPK	2.0
+s_3909	ASCC2	2.0
+s_55088	SYT6	2.0
+s_54311	STAU1	2.0
+s_53890	SRP72	2.0
+s_11035	CDX1	2.0
+s_18178	EMR3	4.0
+s_16084	DLD	2.0
+s_47207	RHOBTB1	2.0
+s_40267	PARK2	12.0
+s_43104	POLR3B	2.0
+s_2200	AMDHD2	2.0
+s_12738	CNRIP1	2.0
+s_17842	EIF4A3	2.0
+s_57950	TMPRSS3	2.0
+s_62146	WRN	2.0
+s_11055	CEACAM1	2.0
+s_54580	STX2	2.0
+s_29277	KIAA1407	2.0
+s_33428	MEF2A	2.0
+s_59797	TUBB	2.0
+s_18113	EME1	2.0
+s_29839	KLHL8	2.0
+s_18058	ELP2	2.0
+s_49497	SDCBP2	6.0
+s_16874	DRP2	2.0
+s_13572	CREBL2	2.0
+s_20540	FBXO30	2.0
+s_64380	ZNF646	2.0
+s_50366	SH2B1	2.0
+s_2548	ANKRD33B	2.0
+s_41183	PDXP	2.0
+s_16315	DNAH12	2.0
+s_19996	FAM49B	2.0
+s_30751	LDLRAD3	2.0
+s_36960	NGEF	2.0
+s_39015	OR2A2	2.0
+s_26302	HSPB2	2.0
+s_64297	ZNF611	10.0
+s_730	ACSBG1	2.0
+s_50271	SFXN4	2.0
+s_8592	CA6	4.0
+s_13683	CRMP1	2.0
+s_51103	SLC16A7	2.0
+s_63785	ZNF384	2.0
+s_16339	DNAH9	2.0
+s_55936	TCTEX1D1	2.0
+s_14497	CXorf40A	2.0
+s_1123	ADAT1	2.0
+s_41304	PERP	2.0
+s_18719	ESAM	2.0
+s_35118	MSX2	2.0
+s_30128	KRT6A	2.0
+s_402	ABTB1	2.0
+s_32578	MAP1LC3A	2.0
+s_45063	PTMA	2.0
+s_43551	PPP1R14D	2.0
+s_2538	ANKRD32	2.0
+s_40384	PAX1	2.0
+s_29076	KIAA0101	2.0
+s_40482	PCDH10	2.0
+s_2348	ANGPT2	2.0
+s_59756	TTYH3	2.0
+s_34330	MOB4	2.0
+s_49331	SCN2B	2.0
+s_54905	SYDE1	2.0
+s_39101	OR2T1	2.0
+s_36623	NEDD4L	2.0
+s_40500	PCDH15	4.0
+s_10660	CDC42SE2	2.0
+s_30867	LGALS13	2.0
+s_24322	GSTK1	4.0
+s_59167	TRPC1	2.0
+s_57440	TMEM201	2.0
+s_50539	SHC1	2.0
+s_37087	NIT1	2.0
+s_56345	TGFB2	2.0
+s_55388	TARM1	2.0
+s_1224	ADD2	2.0
+s_5256	BCOR	4.0
+s_51731	SLC35B3	2.0
+s_12987	COL6A6	2.0
+s_56745	TJP3	2.0
+s_19340	FAM120AOS	2.0
+s_53904	SRPR	2.0
+s_1588	AGXT	2.0
+s_46157	RASA3	2.0
+s_19166	FABP3	14.0
+s_22330	GATM	2.0
+s_10731	CDH13	2.0
+s_2329	ANAPC5	2.0
+s_46045	RANGAP1	2.0
+s_54814	SUV39H2	2.0
+s_56169	TEX14	2.0
+s_3433	ARHGEF26	2.0
+s_48032	RP4-811H24.6	2.0
+s_51930	SLC41A3	2.0
+s_63893	ZNF433	2.0
+s_46996	RGCC	2.0
+s_13863	CSF3R	2.0
+s_26337	HSPH1	2.0
+s_12983	COL6A3	2.0
+s_1376	ADSS	2.0
+s_45449	PYHIN1	2.0
+s_49629	SEC22C	2.0
+s_20204	FAM86A	2.0
+s_24920	HDAC9	2.0
+s_14961	DAPK1	2.0
+s_23900	GPR98	4.0
+s_14485	CXorf27	2.0
+s_61808	WDR66	2.0
+s_55855	TCF7	2.0
+s_44652	PSG8	2.0
+s_46608	RCCD1	2.0
+s_61175	VCAM1	2.0
+s_27453	INCA1	2.0
+s_28987	KDM4C	2.0
+s_20613	FBXO7	2.0
+s_7715	C2orf70	6.0
+s_3902	ASB9	2.0
+s_64098	ZNF534	2.0
+s_31108	LIN7B	2.0
+s_3383	ARHGEF1	2.0
+s_7626	C2orf43	2.0
+s_52247	SLC8A1	2.0
+s_54498	STOX1	2.0
+s_12160	CLDN17	2.0
+s_16224	DMD	2.0
+s_41715	PHLDB2	2.0
+s_12197	CLDN7	2.0
+s_51239	SLC22A16	2.0
+s_41286	PEPD	2.0
+s_2367	ANGPTL4	2.0
+s_59289	TSC22D4	2.0
+s_22437	GCFC2	2.0
+s_24343	GSTO2	2.0
+s_32783	MAPKAPK5	2.0
+s_37032	NINJ1	2.0
+s_49065	SASH3	2.0
+s_60466	UGT1A1	2.0
+s_26043	HPSE2	4.0
+s_21199	FLNA	2.0
+s_41054	PDGFRA	2.0
+s_1820	AKNA	2.0
+s_19548	FAM166A	2.0
+s_43967	PRDX5	2.0
+s_51905	SLC39A8	2.0
+s_22723	GGT5	10.0
+s_13242	COX6C	2.0
+s_27668	IP6K1	2.0
+s_64491	ZNF692	2.0
+s_61982	WHSC1L1	4.0
+s_48495	RSAD1	2.0
+s_34351	MOCS3	2.0
+s_12069	CLCA1	6.0
+s_22023	GABRR1	2.0
+s_12812	COASY	4.0
+s_40068	PAIP1	2.0
+s_11513	CGREF1	4.0
+s_32119	LY6K	2.0
+s_60743	UQCR11	2.0
+s_56354	TGFBR1	2.0
+s_3062	APOL2	2.0
+s_20525	FBXO25	2.0
+s_55591	TBC1D7	2.0
+s_14987	DARS2	2.0
+s_63195	ZMAT2	2.0
+s_41936	PIK3C2G	2.0
+s_56092	TEP1	2.0
+s_61284	VIT	2.0
+s_10035	CCND2	2.0
+s_43744	PPP6R3	4.0
+s_48110	RPL10L	2.0
+s_39381	OR5H15	2.0
+s_6827	C17orf90	4.0
+s_8795	CADPS	2.0
+s_55301	TAF9	2.0
+s_25756	HNRNPM	2.0
+s_61177	VCAN	2.0
+s_22932	GLB1	2.0
+s_55751	TCEA2	2.0
+s_39419	OR5T3	2.0
+s_33669	MEX3A	2.0
+s_42714	PLXNC1	2.0
+s_23239	GNAT1	2.0
+s_4546	ATPAF1	2.0
+s_64432	ZNF671	2.0
+s_31346	LOXHD1	2.0
+s_46353	RBFOX2	2.0
+s_8848	CALHM2	2.0
+s_27039	IL12RB1	2.0
+s_62824	ZCCHC9	2.0
+s_7498	C20orf96	2.0
+s_43406	PPIE	2.0
+s_54925	SYN1	2.0
+s_27284	IL31RA	2.0
+s_63774	ZNF37A	2.0
+s_43643	PPP1R8	2.0
+s_63149	ZIC2	2.0
+s_26251	HSP90AB1	2.0
+s_46773	RELL2	2.0
+s_64868	ZP4	2.0
+s_626	ACLY	2.0
+s_40694	PCED1A	2.0
+s_15888	DHTKD1	2.0
+s_53641	SPP1	2.0
+s_21822	FXR1	2.0
+s_53660	SPR	2.0
+s_29906	KLKB1	2.0
+s_1901	ALAS2	2.0
+s_45130	PTPN2	2.0
+s_43535	PPP1R13B	4.0
+s_15855	DHRS12	2.0
+s_13602	CRH	2.0
+s_51848	SLC39A1	2.0
+s_61205	VDR	2.0
+s_18989	EXOC7	2.0
+s_22294	GATA1	4.0
+s_34584	MRAS	2.0
+s_33140	MCFD2	2.0
+s_34546	MPST	2.0
+s_27208	IL21R	2.0
+s_14576	CYB5R4	2.0
+s_43745	PPP6R3	2.0
+s_41675	PHF8	2.0
+s_41243	PEBP4	4.0
+s_42685	PLXNA1	2.0
+s_41585	PHB2	2.0
+s_47989	RP1L1	2.0
+s_42300	PLA2G6	2.0
+s_53387	SPATA6L	2.0
+s_15423	DDX4	2.0
+s_64039	ZNF506	10.0
+s_22276	GAS6	2.0
+s_15373	DDX19B	2.0
+s_4322	ATP2B2	2.0
+s_25787	HOMER1	2.0
+s_10739	CDH16	2.0
+s_51702	SLC34A3	2.0
+s_20623	FBXO9	4.0
+s_13244	COX6C	2.0
+s_35367	MTX2	2.0
+s_5681	BPIFB6	2.0
+s_57337	TMEM176A	2.0
+s_43464	PPM1F	2.0
+s_20530	FBXO28	2.0
+s_55958	TDGF1	2.0
+s_4516	ATP7B	2.0
+s_19128	F8	2.0
+s_40084	PAK1IP1	2.0
+s_29430	KIF20B	2.0
+s_14773	CYP46A1	2.0
+s_19102	F2R	2.0
+s_29306	KIAA1524	4.0
+s_11438	CETN3	2.0
+s_49647	SEC24D	2.0
+s_35891	NAA11	2.0
+s_10770	CDH23	4.0
+s_44838	PSMG2	2.0
+s_22687	GGCT	2.0
+s_14266	CTSW	2.0
+s_38451	NXF3	2.0
+s_60012	TYRP1	2.0
+s_13190	COTL1	2.0
+s_4721	AZI2	2.0
+s_28800	KCNMB3	2.0
+s_23136	GM2A	2.0
+s_31806	LRRC71	2.0
+s_11862	CHRNG	4.0
+s_52893	SNX12	2.0
+s_31960	LSM5	2.0
+s_3273	ARHGAP22	2.0
+s_22140	GALNT2	2.0
+s_36663	NEK1	2.0
+s_45974	RALB	2.0
+s_48582	RTCA	2.0
+s_27173	IL1RL1	2.0
+s_49800	SEMA6D	2.0
+s_18249	ENOPH1	2.0
+s_31609	LRRC10B	2.0
+s_6450	C14orf176	2.0
+s_42314	PLAC1L	2.0
+s_7822	C3orf27	2.0
+s_43695	PPP2R5C	2.0
+s_8939	CAMKV	2.0
+s_58681	TRAF7	2.0
+s_12850	COG6	2.0
+s_20936	FGF3	2.0
+s_10862	CDK17	2.0
+s_60046	UAP1	2.0
+s_42295	PLA2G5	2.0
+s_52045	SLC4A9	2.0
+s_18532	EPS8L3	2.0
+s_15737	DFNB31	2.0
+s_12691	CNOT4	2.0
+s_27651	INTS7	2.0
+s_52454	SLX4	2.0
+s_5507	BMF	2.0
+s_57583	TMEM25	2.0
+s_36267	NCK2	2.0
+s_15361	DDX17	2.0
+s_24303	GSS	2.0
+s_11095	CEBPB	4.0
+s_59318	TSG101	2.0
+s_35897	NAA16	2.0
+s_11714	CHMP3	2.0
+s_7217	C1orf186	2.0
+s_14282	CTU1	2.0
+s_53137	SOX15	2.0
+s_30977	LHX3	2.0
+s_825	ACTL6A	2.0
+s_33214	MCOLN3	2.0
+s_57706	TMEM55B	2.0
+s_41619	PHF12	2.0
+s_13595	CREM	2.0
+s_30523	LARP4	2.0
+s_6229	C11orf68	2.0
+s_17880	EIF4G2	2.0
+s_36676	NEK3	2.0
+s_23667	GPR123	2.0
+s_1296	ADORA1	2.0
+s_18235	ENHO	2.0
+s_20589	FBXO45	2.0
+s_31341	LOX	2.0
+s_20983	FGFR2	2.0
+s_44192	PRLR	2.0
+s_62014	WIPI2	2.0
+s_2585	ANKRD45	2.0
+s_14161	CTLA4	2.0
+s_63079	ZFYVE1	2.0
+s_7088	C1orf106	2.0
+s_10461	CD55	2.0
+s_24803	HBM	2.0
+s_52929	SNX21	2.0
+s_40041	PAFAH2	2.0
+s_17056	DUSP15	2.0
+s_61656	WDR12	2.0
+s_28830	KCNQ3	4.0
+s_44745	PSMB9	2.0
+s_16151	DLGAP5	2.0
+s_17799	EIF2S3	2.0
+s_49444	SCTR	2.0
+s_37203	NLGN3	2.0
+s_63798	ZNF385D	2.0
+s_42282	PLA2G4D	2.0
+s_27383	ILF3	2.0
+s_40974	PDE4DIP	2.0
+s_55037	SYT1	2.0
+s_52560	SMC6	2.0
+s_56910	TM9SF2	2.0
+s_64839	ZNHIT6	4.0
+s_20818	FES	2.0
+s_16789	DPY19L3	2.0
+s_46072	RAP2A	2.0
+s_24369	GTDC1	2.0
+s_5332	BEST3	2.0
+s_15793	DGKG	4.0
+s_13197	COX11	2.0
+s_1613	AHCYL1	2.0
+s_62445	YLPM1	2.0
+s_5441	BIN3	2.0
+s_20572	FBXO41	2.0
+s_26507	IBSP	2.0
+s_17166	DYNC2H1	2.0
+s_37694	NPNT	2.0
+s_62561	ZBP1	2.0
+s_28074	ITGB3BP	2.0
+s_13046	COMMD4	2.0
+s_4936	BAIAP3	2.0
+s_16345	DNAI1	4.0
+s_60141	UBE2D4	2.0
+s_34569	MPZL3	2.0
+s_35839	MYRIP	2.0
+s_42840	PNN	2.0
+s_64147	ZNF558	2.0
+s_21759	FUCA2	2.0
+s_62347	XYLB	2.0
+s_41049	PDGFD	2.0
+s_19760	FAM198B	2.0
+s_4944	BAMBI	2.0
+s_59471	TSSC1	2.0
+s_60224	UBE2T	2.0
+s_62753	ZC3H6	2.0
+s_29129	KIAA0355	2.0
+s_43266	PPA2	2.0
+s_48165	RPL31	2.0
+s_25918	HOXC8	2.0
+s_61309	VMO1	2.0
+s_29649	KLF5	2.0
+s_3093	APP	2.0
+s_59201	TRPM2	4.0
+s_31154	LIPH	2.0
+s_43571	PPP1R17	2.0
+s_58112	TNFRSF25	2.0
+s_22767	GHRL	2.0
+s_59817	TUBB6	2.0
+s_63192	ZMAT1	2.0
+s_7306	C1orf49	2.0
+s_37585	NOX5	2.0
+s_57817	TMEM87B	2.0
+s_3667	ARNTL2	2.0
+s_14264	CTSS	2.0
+s_61283	VIT	2.0
+s_35482	MXD3	4.0
+s_54197	STAC2	2.0
+s_54806	SUSD5	2.0
+s_22238	GAPT	2.0
+s_62113	WNT8A	2.0
+s_54543	STRN4	2.0
+s_33235	MDC1	2.0
+s_63489	ZNF224	2.0
+s_37914	NRG1	2.0
+s_36452	NDUFA3	2.0
+s_12262	CLEC3B	2.0
+s_25	AAAS	2.0
+s_50339	SGPP2	2.0
+s_30706	LDB1	2.0
+s_49357	SCN8A	2.0
+s_33618	METTL21D	2.0
+s_4402	ATP5O	2.0
+s_55017	SYNRG	2.0
+s_51299	SLC23A3	2.0
+s_34572	MR1	4.0
+s_49259	SCGB3A1	2.0
+s_17794	EIF2S1	2.0
+s_47977	RP11-744I24.1	2.0
+s_32701	MAP7	2.0
+s_32432	MAGI3	2.0
+s_36564	NDUFS6	2.0
+s_11527	CHAC1	2.0
+s_56181	TEX22	2.0
+s_714	ACPT	2.0
+s_51144	SLC18A1	2.0
+s_57122	TMEM117	2.0
+s_28872	KCTD1	2.0
+s_63600	ZNF28	2.0
+s_57369	TMEM182	2.0
+s_60388	UCK1	2.0
+s_47188	RHEB	2.0
+s_15237	DCTD	2.0
+s_42694	PLXNA4	2.0
+s_19680	FAM187B	2.0
+s_35378	MUC1	2.0
+s_38682	OGG1	2.0
+s_1085	ADAMTS9	2.0
+s_40910	PDE1A	2.0
+s_27956	ISOC2	2.0
+s_27821	IRAK1	2.0
+s_16210	DMBT1	2.0
+s_63398	ZNF184	2.0
+s_18679	ERMP1	2.0
+s_9161	CASC1	4.0
+s_45196	PTPRF	2.0
+s_23002	GLIS2	2.0
+s_17310	EBP	2.0
+s_54797	SUSD3	2.0
+s_1528	AGPAT4	2.0
+s_7045	C1QTNF6	2.0
+s_22952	GLCE	2.0
+s_7105	C1orf111	2.0
+s_36537	NDUFC1	2.0
+s_15359	DDX11	2.0
+s_32881	MARK3	2.0
+s_27486	INHA	2.0
+s_2399	ANK2	2.0
+s_60825	USP10	2.0
+s_20838	FEZ2	2.0
+s_43974	PREB	2.0
+s_16482	DNAJC5G	2.0
+s_26334	HSPG2	2.0
+s_46175	RASD1	2.0
+s_26764	IFT20	2.0
+s_14739	CYP2J2	2.0
+s_11386	CERS2	2.0
+s_5964	BTN1A1	2.0
+s_16810	DPYSL3	2.0
+s_16136	DLGAP2	2.0
+s_13401	CPPED1	2.0
+s_22359	GBGT1	2.0
+s_49575	SDSL	2.0
+s_62067	WNT16	2.0
+s_61863	WDR83OS	2.0
+s_44742	PSMB8	4.0
+s_31855	LRRFIP2	2.0
+s_528	ACADM	2.0
+s_13073	COPA	2.0
+s_32741	MAPK3	2.0
+s_38779	OPA3	2.0
+s_34827	MRPS17	2.0
+s_16969	DTX1	2.0
+s_56448	THAP4	2.0
+s_906	ACVR2A	2.0
+s_45078	PTP4A2	2.0
+s_23628	GPR101	2.0
+s_58510	TPD52L1	2.0
+s_561	ACAT2	2.0
+s_52492	SMAP2	2.0
+s_24039	GRB2	2.0
+s_46264	RASSF4	2.0
+s_39609	ORMDL3	2.0
+s_47343	RIMS4	2.0
+s_56575	THUMPD1	2.0
+s_3261	ARHGAP18	2.0
+s_8148	C6orf165	2.0
+s_17030	DUSP10	2.0
+s_56155	TEX101	2.0
+s_21191	FLI1	2.0
+s_50732	SIK1	2.0
+s_2914	APCDD1	2.0
+s_30717	LDB3	2.0
+s_4702	AXIN1	4.0
+s_21360	FNIP2	2.0
+s_54350	STEAP4	2.0
+s_57227	TMEM14A	4.0
+s_58177	TNIK	2.0
+s_7465	C20orf26	4.0
+s_17327	ECE2	2.0
+s_51639	SLC30A10	2.0
+s_4352	ATP5A1	2.0
+s_18616	ERCC8	2.0
+s_44043	PRIMA1	2.0
+s_36712	NELL2	2.0
+s_61348	VPS16	2.0
+s_2680	ANO4	2.0
+s_30437	LAMB2	2.0
+s_33742	MFSD12	2.0
+s_58796	TRHR	2.0
+s_52365	SLCO5A1	2.0
+s_41281	PEMT	2.0
+s_23427	GON4L	2.0
+s_13427	CPSF3L	2.0
+s_40193	PAPD7	2.0
+s_21543	FPGT	4.0
+s_16722	DPH2	2.0
+s_40078	PAIP2B	2.0
+s_60284	UBL5	2.0
+s_59936	TXNDC15	2.0
+s_31898	LRRTM4	2.0
+s_44833	PSMG1	4.0
+s_19552	FAM166B	2.0
+s_19478	FAM151A	2.0
+s_30185	KRTAP1-3	2.0
+s_61742	WDR45	2.0
+s_7252	C1orf212	2.0
+s_29507	KIF9	2.0
+s_2786	AP1G1	2.0
+s_21222	FLT1	2.0
+s_38408	NUP93	2.0
+s_60875	USP25	2.0
+s_39905	P2RX5	2.0
+s_54470	STOML1	2.0
+s_19064	EYA4	2.0
+s_41060	PDGFRL	2.0
+s_32049	LUC7L	2.0
+s_11837	CHRNA9	2.0
+s_64166	ZNF563	2.0
+s_11211	CENPK	2.0
+s_63097	ZFYVE21	2.0
+s_24757	HAUS4	2.0
+s_4190	ATG7	2.0
+s_48629	RTN4	2.0
+s_22880	GJB3	2.0
+s_44427	PRR7	2.0
+s_464	AC069154.2	2.0
+s_22093	GALC	2.0
+s_55367	TAPBP	2.0
+s_56672	TIMM22	2.0
+s_22286	GAS7	2.0
+s_45341	PVR	2.0
+s_34498	MPL	2.0
+s_60077	UBA7	6.0
+s_44215	PRMT5	2.0
+s_15576	DEFB125	2.0
+s_44098	PRKAR2B	6.0
+s_38270	NUDT19	2.0
+s_12662	CNNM3	2.0
+s_51149	SLC18A2	2.0
+s_42223	PKP4	2.0
+s_31072	LIMK1	2.0
+s_6339	C12orf53	2.0
+s_26400	HTR3E	2.0
+s_43315	PPARD	2.0
+s_28264	JAM3	2.0
+s_33927	MIER1	2.0
+s_11251	CEP104	2.0
+s_33388	MED24	2.0
+s_53844	SRGAP1	2.0
+s_40003	PACSIN2	2.0
+s_5428	BIK	2.0
+s_28459	KAZN	2.0
+s_12578	CNBP	2.0
+s_20731	FCRL3	2.0
+s_41692	PHKB	6.0
+s_13730	CRTC2	2.0
+s_50741	SIKE1	4.0
+s_10340	CD276	2.0
+s_42441	PLD6	2.0
+s_32600	MAP2K1	4.0
+s_21836	FXYD3	10.0
+s_33227	MCTP2	2.0
+s_23930	GPS1	2.0
+s_58948	TRIM46	2.0
+s_23579	GPER	2.0
+s_19158	FABP12	2.0
+s_26003	HPGD	2.0
+s_12701	CNOT7	2.0
+s_41164	PDS5B	2.0
+s_35675	MYLIP	2.0
+s_54071	SSX5	2.0
+s_59652	TTC9C	2.0
+s_35593	MYH10	2.0
+s_28060	ITGB1BP1	2.0
+s_52258	SLC8A3	4.0
+s_52898	SNX14	2.0
+s_25618	HMGCS1	2.0
+s_5068	BBS9	2.0
+s_4389	ATP5J	2.0
+s_49674	SEC62	2.0
+s_10264	CD1D	2.0
+s_20442	FBXL16	2.0
+s_11296	CEP41	2.0
+s_64923	ZSCAN22	2.0
+s_43954	PRDX3	2.0
+s_41735	PHOX2A	2.0
+s_33740	MFSD11	2.0
+s_2779	AP000892.1	2.0
+s_12703	CNOT7	2.0
+s_23338	GNMT	2.0
+s_14454	CXXC1	2.0
+s_49387	SCO1	2.0
+s_9124	CARD8	2.0
+s_42754	PML	4.0
+s_38814	OPRD1	2.0
+s_40024	PADI4	2.0
+s_29225	KIAA1147	2.0
+s_43402	PPID	2.0
+s_58669	TRAF3IP3	2.0
+s_59528	TTC17	2.0
+s_19114	F2RL3	2.0
+s_3339	ARHGAP35	2.0
+s_1522	AGPAT2	2.0
+s_33006	MBD2	2.0
+s_64149	ZNF558	2.0
+s_9791	CCDC69	2.0
+s_51442	SLC25A4	2.0
+s_59174	TRPC4	2.0
+s_37772	NQO2	2.0
+s_28649	KCNH8	2.0
+s_39896	P2RX3	2.0
+s_44644	PSG4	2.0
+s_51440	SLC25A39	2.0
+s_23954	GPSM3	2.0
+s_58911	TRIM36	2.0
+s_20632	FBXW12	2.0
+s_50149	SETMAR	2.0
+s_42606	PLK4	4.0
+s_55148	TAB1	2.0
+s_64628	ZNF772	2.0
+s_10616	CDC34	2.0
+s_38307	NUDT8	2.0
+s_23831	GPR35	2.0
+s_17055	DUSP15	2.0
+s_6922	C19orf44	2.0
+s_42494	PLEKHF2	2.0
+s_2104	ALPK1	2.0
+s_17640	EGFR	2.0
+s_37797	NR1H3	2.0
+s_23299	GNG3	2.0
+s_9517	CCDC125	2.0
+s_7562	C22orf42	2.0
+s_38149	NTNG1	2.0
+s_64633	ZNF774	2.0
+s_34420	MORN3	2.0
+s_56144	TET2	2.0
+s_18093	EMC6	2.0
+s_63835	ZNF410	2.0
+s_35521	MYBPC1	2.0
+s_64601	ZNF75D	2.0
+s_42105	PITX2	2.0
+s_39091	OR2M4	4.0
+s_1765	AKAP13	2.0
+s_6189	C11orf45	2.0
+s_63701	ZNF330	2.0
+s_28136	ITM2A	2.0
+s_56984	TMCO1	2.0
+s_49007	SAMSN1	2.0
+s_33654	METTL7A	4.0
+s_41626	PHF14	2.0
+s_34072	MLF1	2.0
+s_8880	CALR	2.0
+s_8738	CACNB4	2.0
+s_64012	ZNF496	2.0
+s_59206	TRPM3	2.0
+s_3971	ASIC5	2.0
+s_190	ABCC10	2.0
+s_41999	PIM1	2.0
+s_64465	ZNF684	2.0
+s_18728	ESD	2.0
+s_33786	MGA	2.0
+s_39611	OS9	2.0
+s_3484	ARID1B	2.0
+s_1238	ADH4	2.0
+s_53695	SPRTN	2.0
+s_23676	GPR126	2.0
+s_26052	HRAS	2.0
+s_36545	NDUFS1	2.0
+s_63208	ZMAT5	2.0
+s_2908	APC	2.0
+s_15119	DCAF8	2.0
+s_64395	ZNF655	2.0
+s_54556	STUB1	2.0
+s_10027	CCNC	2.0
+s_20178	FAM83C	2.0
+s_38266	NUDT17	2.0
+s_63517	ZNF233	2.0
+s_5435	BIN1	6.0
+s_13322	CPEB3	6.0
+s_19210	FAHD2A	2.0
+s_28276	JDP2	2.0
+s_38449	NXF1	2.0
+s_44619	PSEN1	2.0
+s_49290	SCMH1	2.0
+s_63232	ZMYM3	2.0
+s_47908	RP11-173D9.3	2.0
+s_51358	SLC25A18	2.0
+s_42513	PLEKHG5	2.0
+s_270	ABHD1	2.0
+s_58611	TPSG1	2.0
+s_45665	RAB33A	2.0
+s_35550	MYCL1	2.0
+s_55953	TCTN3	2.0
+s_39190	OR4D5	2.0
+s_64862	ZP2	2.0
+s_48451	RRM2	2.0
+s_44136	PRKCZ	2.0
+s_12532	CMTM1	2.0
+s_13958	CSPP1	2.0
+s_61437	VSIG1	2.0
+s_2427	ANKH	2.0
+s_48236	RPP25	2.0
+s_25248	HHIP	2.0
+s_49666	SEC61A2	4.0
+s_40916	PDE1C	2.0
+s_51267	SLC22A3	4.0
+s_45250	PTPRU	2.0
+s_54454	STMN2	2.0
+s_50448	SH3BP5	2.0
+s_35505	MYB	2.0
+s_34174	MMD2	2.0
+s_43046	POLR1D	2.0
+s_26919	IGSF1	2.0
+s_59350	TSKU	2.0
+s_52462	SMAD3	2.0
+s_44496	PRSS22	2.0
+s_12310	CLIC1	2.0
+s_60920	USP38	2.0
+s_42557	PLEKHO2	2.0
+s_37636	NPEPL1	2.0
+s_56222	TFAP2A	2.0
+s_46417	RBM22	2.0
+s_20477	FBXL6	2.0
+s_30504	LAPTM4A	2.0
+s_49873	4-Sep	2.0
+s_22231	GAPDH	2.0
+s_24866	HCRT	2.0
+s_26084	HRH4	2.0
+s_266	ABCG8	2.0
+s_31387	LPCAT1	2.0
+s_38114	NTF3	2.0
+s_13990	CST11	2.0
+s_24036	GRB14	2.0
+s_50585	SHISA4	2.0
+s_14163	CTNNA1	2.0
+s_1729	AK2	2.0
+s_62985	ZFHX3	2.0
+s_21318	FNBP1L	2.0
+s_13575	CREBRF	2.0
+s_5344	BET1	2.0
+s_49424	SCRN2	2.0
+s_31170	LIPN	2.0
+s_54781	SURF2	2.0
+s_51325	SLC25A1	2.0
+s_34136	MLNR	2.0
+s_31677	LRRC31	2.0
+s_53307	SPARCL1	2.0
+s_28022	ITGA7	2.0
+s_31356	LOXL3	2.0
+s_118	ABCA12	2.0
+s_12481	CLUL1	2.0
+s_40393	PAX3	2.0
+s_39614	OS9	2.0
+s_22342	GBA2	2.0
+s_1136	ADC	2.0
+s_10401	CD37	2.0
+s_4512	ATP7A	2.0
+s_10615	CDC27	2.0
+s_54497	STOX1	2.0
+s_46754	REG4	2.0
+s_20299	FAP	2.0
+s_63316	ZNF138	2.0
+s_42213	PKP2	2.0
+s_52161	SLC6A4	2.0
+s_60954	USP48	2.0
+s_14721	CYP2C9	2.0
+s_54067	SSX3	2.0
+s_42512	PLEKHG5	2.0
+s_32324	MAD2L1BP	2.0
+s_26149	HSD11B1L	2.0
+s_62941	ZFAND1	2.0
+s_306	ABHD16A	2.0
+s_42173	PKIG	2.0
+s_33499	MEOX1	2.0
+s_2639	ANKS1A	2.0
+s_9221	CASP4	4.0
+s_60951	USP48	2.0
+s_42487	PLEKHB2	2.0
+s_12463	CLTB	2.0
+s_17140	DYDC2	2.0
+s_15238	DCTD	2.0
+s_32766	MAPK8IP3	2.0
+s_6844	C18orf1	2.0
+s_29768	KLHL25	2.0
+s_58192	TNIP3	2.0
+s_26239	HSF4	2.0
+s_14209	CTRL	2.0
+s_7539	C22orf25	2.0
+s_21263	FMNL3	2.0
+s_56798	TLK1	2.0
+s_30163	KRT80	2.0
+s_28530	KCNAB1	2.0
+s_50079	SESN2	2.0
+s_17622	EGFL7	2.0
+s_27107	IL17RE	2.0
+s_61128	VASH2	2.0
+s_7629	C2orf44	2.0
+s_59045	TRIML2	2.0
+s_53186	SP110	2.0
+s_44696	PSMA8	2.0
+s_4081	ATAT1	2.0
+s_59776	TUBA3C	2.0
+s_26981	IKBKB	2.0
+s_11984	CINP	2.0
+s_38231	NUDT1	2.0
+s_34096	MLKL	2.0
+s_39703	OSM	2.0
+s_44761	PSMC4	2.0
+s_29844	KLK1	2.0
+s_46470	RBM43	2.0
+s_21735	FTSJ1	2.0
+s_54159	ST7L	2.0
+s_29161	KIAA0586	2.0
+s_62066	WNT11	2.0
+s_32768	MAPK9	2.0
+s_38834	OPTC	2.0
+s_27041	IL12RB2	2.0
+s_25301	HIGD1C	2.0
+s_48626	RTN4	2.0
+s_2191	AMBRA1	2.0
+s_64637	ZNF775	2.0
+s_24425	GTF2IRD1	4.0
+s_28025	ITGA7	2.0
+s_21739	FTSJ2	2.0
+s_56140	TET1	2.0
+s_18340	EOGT	2.0
+s_48335	RPS6KA1	2.0
+s_8918	CAMK2N1	2.0
+s_9126	CARD8	2.0
+s_34993	MSC	2.0
+s_62519	YY1AP1	2.0
+s_17754	EIF2B2	2.0
+s_3894	ASB7	2.0
+s_1366	ADRBK2	2.0
+s_63368	ZNF169	2.0
+s_33217	MCRS1	2.0
+s_791	ACSS3	2.0
+s_3070	APOL5	2.0
+s_158	ABCB4	2.0
+s_46169	RASAL2	2.0
+s_31573	LRP3	2.0
+s_15806	DGKQ	2.0
+s_3426	ARHGEF2	2.0
+s_22505	GDAP2	2.0
+s_43731	PPP4R4	2.0
+s_62463	YPEL3	2.0
+s_1351	ADRA2A	2.0
+s_58570	TPPP	2.0
+s_27563	INPP5K	2.0
+s_64662	ZNF783	2.0
+s_43701	PPP2R5D	2.0
+s_41032	PDE9A	2.0
+s_40077	PAIP2B	2.0
+s_55106	SYTL2	2.0
+s_36104	NAT1	2.0
+s_5659	BPIFA2	2.0
+s_24738	HAS3	2.0
+s_23688	GPR135	2.0
+s_44125	PRKCI	2.0
+s_42154	PKDCC	2.0
+s_52320	SLC9B2	2.0
+s_56287	TFF1	2.0
+s_26218	HSDL1	2.0
+s_48811	S100A14	2.0
+s_27403	IMMT	2.0
+s_44547	PRSS50	2.0
+s_13554	CREB3L3	2.0
+s_52812	SNRNP35	2.0
+s_9678	CCDC28B	2.0
+s_42982	POLD4	2.0
+s_9038	CAPN3	2.0
+s_24550	GYG1	2.0
+s_7927	C4orf19	2.0
+s_59893	TWF2	2.0
+s_21776	FUS	2.0
+s_38699	OLA1	2.0
+s_15466	DDX54	2.0
+s_57105	TMEM110	2.0
+s_47396	RIPPLY2	2.0
+s_29679	KLHDC3	2.0
+s_19864	FAM214B	2.0
+s_22859	GIT2	2.0
+s_63818	ZNF397	2.0
+s_62767	ZC3HAV1	2.0
+s_30390	LAD1	2.0
+s_54683	SULT1C3	2.0
+s_29008	KDM5D	2.0
+s_24721	HARS	2.0
+s_19875	FAM217A	2.0
+s_33598	METTL18	2.0
+s_43299	PPAPDC1B	2.0
+s_23606	GPM6A	2.0
+s_8917	CAMK2G	2.0
+s_7803	C3orf22	2.0
+s_52734	SNAP91	4.0
+s_46558	RBPJL	2.0
+s_44462	PRRT2	2.0
+s_30938	LHB	2.0
+s_33858	MIA2	2.0
+s_1394	AEN	2.0
+s_39870	OXSR1	2.0
+s_4906	BAG6	2.0
+s_16155	DLK2	2.0
+s_35274	MTMR4	2.0
+s_10518	CD81	2.0
+s_39057	OR2F2	2.0
+s_43913	PRDM16	2.0
+s_34638	MRPL1	2.0
+s_612	ACER3	2.0
+s_32740	MAPK3	2.0
+s_16130	DLGAP1	2.0
+s_15564	DEFB119	2.0
+s_41047	PDGFC	2.0
+s_30824	LEPRE1	2.0
+s_19702	FAM189B	2.0
+s_16740	DPM3	2.0
+s_13557	CREB3L4	2.0
+s_10008	CCNA1	2.0
+s_58486	TP73	2.0
+s_18717	ESAM	2.0
+s_63612	ZNF280D	2.0
+s_14187	CTNND2	2.0
+s_59449	TSPO2	2.0
+s_42709	PLXNB3	2.0
+s_39221	OR4M2	2.0
+s_49750	SEMA3F	2.0
+s_8476	C9orf3	2.0
+s_45561	RAB11A	2.0
+s_5542	BMP5	2.0
+s_1064	ADAMTS4	2.0
+s_5354	BET3L	2.0
+s_17631	EGFLAM	2.0
+s_36593	NEBL	2.0
+s_6085	C10orf2	2.0
+s_13428	CPSF3L	2.0
+s_25023	HECW1	2.0
+s_3641	ARMC9	2.0
+s_56315	TFPT	2.0
+s_3278	ARHGAP22	2.0
+s_49946	SERPINA1	2.0
+s_20760	FDFT1	2.0
+s_26065	HRCT1	2.0
+s_50473	SH3GL1	2.0
+s_22971	GLI1	2.0
+s_24638	H6PD	2.0
+s_40488	PCDH11X	2.0
+s_61210	VEGFB	2.0
+s_28841	KCNQ5	2.0
+s_43717	PPP3R1	2.0
+s_25342	HIRA	2.0
+s_57951	TMPRSS4	2.0
+s_34011	MITF	2.0
+s_54412	STK32B	2.0
+s_16037	DISC1	2.0
+s_51701	SLC34A3	2.0
+s_54291	STAT4	2.0
+s_24419	GTF2I	2.0
+s_45973	RALB	2.0
+s_28705	KCNJ6	2.0
+s_5581	BNIP1	2.0
+s_19856	FAM213A	2.0
+s_18308	ENTPD1	2.0
+s_59198	TRPM1	2.0
+s_21871	FZD10	2.0
+s_1850	AKR1C4	2.0
+s_6867	C18orf54	2.0
+s_35715	MYO18B	2.0
+s_22242	GAPVD1	2.0
+s_32713	MAP7D3	2.0
+s_49953	SERPINA12	2.0
+s_55916	TCP11	2.0
+s_56174	TEX19	2.0
+s_22072	GAL	2.0
+s_41033	PDE9A	2.0
+s_26471	HYAL3	2.0
+s_60244	UBE2Z	2.0
+s_12589	CNEP1R1	2.0
+s_29896	KLK8	2.0
+s_29769	KLHL26	2.0
+s_39346	OR5AP2	2.0
+s_15213	DCPS	2.0
+s_48577	RTBDN	2.0
+s_32146	LYAR	2.0
+s_26382	HTR3C	2.0
+s_33001	MBD1	2.0
+s_41972	PIK3R2	2.0
+s_33212	MCOLN3	2.0
+s_35423	MUL1	2.0
+s_7838	C3orf35	2.0
+s_51092	SLC16A4	2.0
+s_20336	FASTK	2.0
+s_33469	MEI1	2.0
+s_5549	BMP7	2.0
+s_2490	ANKRD16	2.0
+s_38674	OGFRL1	2.0
+s_26322	HSPBAP1	2.0
+s_31244	LMNA	2.0
+s_34063	MLC1	2.0
+s_15550	DEFB113	2.0
+s_52892	SNX12	2.0
+s_25799	HOOK2	2.0
+s_55486	TAX1BP1	2.0
+s_4351	ATP5A1	2.0
+s_49917	SERHL2	2.0
+s_46614	RCHY1	2.0
+s_62680	ZBTB7B	2.0
+s_49488	SDCBP	2.0
+s_21866	FYTTD1	2.0
+s_23092	GLTPD1	2.0
+s_10675	CDC73	2.0
+s_12764	CNTN2	2.0
+s_9223	CASP5	2.0
+s_38310	NUDT8	2.0
+s_7059	C1QTNF9B	2.0
+s_33162	MCM3AP	2.0
+s_8498	C9orf50	2.0
+s_16876	DSC1	2.0
+s_14370	CWH43	2.0
+s_22565	GDPD1	2.0
+s_4304	ATP1B4	2.0
+s_3600	ARMC10	2.0
+s_18120	EMID1	2.0
+s_21865	FYN	2.0
+s_60042	U2SURP	2.0
+s_13930	CSNK1G3	2.0
+s_6618	C16orf53	2.0
+s_26173	HSD17B12	2.0
+s_46035	RANBP3L	2.0
+s_13167	CORO2A	2.0
+s_10481	CD6	2.0
+s_4563	ATPIF1	2.0
+s_50071	SERTAD4	2.0
+s_39089	OR2M3	2.0
+s_58390	TOR1AIP2	2.0
+s_45132	PTPN2	2.0
+s_34536	MPPED2	2.0
+s_24336	GSTM5	2.0
+s_38670	OGFR	2.0
+s_4606	ATXN3	2.0
+s_5049	BBS12	2.0
+s_28134	ITM2A	2.0
+s_23612	GPN1	2.0
+s_16085	DLEC1	2.0
+s_2525	ANKRD28	2.0
+s_1792	AKAP7	2.0
+s_27701	IPO11	2.0
+s_25633	HMGN5	2.0
+s_33287	MDM4	2.0
+s_17847	EIF4E	2.0
+s_58327	TOMM34	2.0
+s_54101	ST3GAL3	2.0
+s_41507	PGLYRP3	2.0
+s_38705	OLAH	2.0
+s_7336	C1orf61	2.0
+s_34439	MOSPD3	2.0
+s_33343	MED12	2.0
+s_30145	KRT75	2.0
+s_7793	C3orf18	2.0
+s_13874	CSH2	2.0
+s_14274	CTTN	2.0
+s_38166	NTRK2	2.0
+s_2916	APCDD1L	2.0
+s_41582	PHB	2.0
+s_16033	DISC1	2.0
+s_54156	ST7L	2.0
+s_21942	GABARAPL1	2.0
+s_19312	FAM115C	2.0
+s_5431	BIN1	2.0
+s_44378	PRR15	2.0
+s_22113	GALNT1	2.0
+s_11744	CHN1	2.0
+s_13702	CROT	2.0
+s_14052	CT62	2.0
+s_28143	ITM2C	2.0
+s_43456	PPM1B	2.0
+s_1396	AES	2.0
+s_21931	GAB2	2.0
+s_39536	OR8J3	2.0
+s_62622	ZBTB37	2.0
+s_10417	CD3G	2.0
+s_23789	GPR176	2.0
+s_37011	NICN1	2.0
+s_55412	TAS1R2	2.0
+s_36626	NEDD4L	2.0
+s_62812	ZCCHC4	2.0
+s_18097	EMC7	2.0
+s_36145	NAV2	2.0
+s_18994	EXOG	2.0
+s_61047	UTY	2.0
+s_57912	TMPRSS11B	2.0
+s_56577	THUMPD1	2.0
+s_8419	C9orf123	2.0
+s_36127	NAT9	2.0
+s_57557	TMEM240	2.0
+s_36157	NBEA	2.0
+s_16271	DMRTA2	2.0
+s_44643	PSG4	2.0
+s_53557	SPINK8	2.0
+s_36256	NCF4	2.0
+s_46280	RASSF6	2.0
+s_47580	RNF141	2.0
+s_8514	C9orf71	2.0
+s_62629	ZBTB4	2.0
+s_4286	ATP1A3	2.0
+s_36001	NAGK	2.0
+s_38778	OPA3	2.0
+s_8907	CAMK2A	2.0
+s_10448	CD5	2.0
+s_20085	FAM69B	2.0
+s_31389	LPCAT1	2.0
+s_56204	TEX34	2.0
+s_30139	KRT72	2.0
+s_34962	MS4A6A	2.0
+s_12886	COL17A1	2.0
+s_46458	RBM4	2.0
+s_37813	NR1I3	2.0
+s_10007	CCNA1	0
+s_10164	CCS	0
+s_10200	CCT7	0
+s_10232	CD164	0
+s_1035	ADAMTS14	0
+s_10381	CD300LG	0
+s_10402	CD37	0
+s_10405	CD38	0
+s_10408	CD3D	0
+s_10425	CD40	0
+s_10434	CD44	0
+s_10437	CD46	0
+s_10541	CD8B	0
+s_10563	CD99L2	0
+s_10582	CDC14B	0
+s_10594	CDC20B	0
+s_10657	CDC42SE2	0
+s_10658	CDC42SE2	0
+s_10785	CDH3	0
+s_10943	CDKL5	0
+s_1101	ADAMTSL4	0
+s_11025	CDSN	0
+s_11054	CEACAM1	0
+s_1113	ADAR	0
+s_11153	CELF4	0
+s_1116	ADARB1	0
+s_11218	CENPL	0
+s_11222	CENPM	0
+s_1127	ADAT2	0
+s_11294	CEP41	0
+s_11317	CEP63	0
+s_11456	CFH	0
+s_11585	CHD1	0
+s_11598	CHD3	0
+s_11692	CHL1	0
+s_1177	ADCY3	0
+s_1179	ADCY4	0
+s_1183	ADCY5	0
+s_11877	CHST13	0
+s_11928	CHUK	0
+s_12015	CITED1	0
+s_12019	CIZ1	0
+s_12021	CIZ1	0
+s_12049	CKLF-CMTM1	0
+s_12057	CKMT2	0
+s_12082	CLCC1	0
+s_12089	CLCF1	0
+s_1212	ADD1	0
+s_12120	CLCN7	0
+s_12121	CLCN7	0
+s_12138	CLDN10	0
+s_12140	CLDN10	0
+s_12177	CLDN2	0
+s_12187	CLDN25	0
+s_12203	CLDND1	0
+s_12209	CLDND2	0
+s_12420	CLPTM1	0
+s_12425	CLPX	0
+s_12433	CLRN2	0
+s_12522	CMPK2	0
+s_12576	CNBP	0
+s_12611	CNGB1	0
+s_12624	CNIH2	0
+s_12666	CNNM3	0
+s_12708	CNP	0
+s_12856	COG8	0
+s_12875	COL14A1	0
+s_12906	COL22A1	0
+s_12923	COL27A1	0
+s_13026	COLEC12	0
+s_13035	COMMD1	0
+s_13067	COMT	0
+s_13091	COPG1	0
+s_13123	COQ2	0
+s_13198	COX11	0
+s_13220	COX4I2	0
+s_13253	COX7A2L	0
+s_13287	CPA5	0
+s_13290	CPA6	0
+s_13309	CPE	0
+s_13328	CPED1	0
+s_13338	CPLX3	0
+s_13387	CPO	0
+s_13389	CPO	0
+s_13393	CPOX	0
+s_13405	CPS1	0
+s_13486	CR2	0
+s_13512	CRB1	0
+s_1357	ADRB1	0
+s_13579	CREBZF	0
+s_13662	CRK	0
+s_13686	CRMP1	0
+s_13718	CRTAM	0
+s_13755	CRYBA1	0
+s_13856	CSF3	0
+s_13857	CSF3	0
+s_13879	CSHL1	0
+s_1393	AEN	0
+s_13937	CSNK2A1	0
+s_13985	CSRP3	0
+s_14021	CSTA	0
+s_14099	CTCFL	0
+s_14107	CTD-2616J11.4	0
+s_14153	CTIF	0
+s_14189	CTNND2	0
+s_14226	CTSC	0
+s_14286	CTU2	0
+s_14338	CUTA	0
+s_14364	CWF19L1	0
+s_14369	CWH43	0
+s_14418	CXCL3	0
+s_14425	CXCL6	0
+s_14439	CXCR4	0
+s_14463	CXXC4	0
+s_14467	CXXC5	0
+s_1450	AGA	0
+s_14520	CXorf61	0
+s_14586	CYBA	0
+s_14670	CYP26A1	0
+s_14761	CYP3A4	0
+s_14894	DAB2IP	0
+s_14938	DALRD3	0
+s_14995	DAXX	0
+s_14996	DAXX	0
+s_15017	DBF4	0
+s_15052	DBP	0
+s_15113	DCAF6	0
+s_15182	DCLRE1A	0
+s_15320	DDI1	0
+s_15363	DDX17	0
+s_15385	DDX23	0
+s_15405	DDX31	0
+s_15438	DDX46	0
+s_15440	DDX47	0
+s_15472	DDX58	0
+s_15482	DDX6	0
+s_15488	DDX60L	0
+s_1549	AGPS	0
+s_1550	AGPS	0
+s_15520	DEF8	0
+s_15522	DEF8	0
+s_15563	DEFB119	0
+s_15566	DEFB119	0
+s_15586	DEFB127	0
+s_15648	DENND2D	0
+s_15655	DENND4A	0
+s_15679	DEPDC1	0
+s_15700	DERL1	0
+s_15731	DFFB	0
+s_15800	DGKI	0
+s_15867	DHRS3	0
+s_15897	DHX16	0
+s_15939	DHX40	0
+s_15965	DIAPH3	0
+s_15988	DIO1	0
+s_1599	AGXT2L1	0
+s_1609	AHCY	0
+s_16149	DLGAP5	0
+s_16175	DLX1	0
+s_16190	DLX3	0
+s_16294	DMXL2	0
+s_16341	DNAH9	0
+s_16417	DNAJC13	0
+s_16505	DNALI1	0
+s_16506	DNALI1	0
+s_16554	DNM2	0
+s_16577	DNMT3A	0
+s_16607	DOCK3	0
+s_1661	AIF1	0
+s_16629	DOCK8	0
+s_1663	AIF1L	0
+s_16675	DOPEY1	0
+s_16745	DPP10	0
+s_16798	DPYD	0
+s_16866	DRGX	0
+s_16867	DRGX	0
+s_1687	AIM1	0
+s_16878	DSC1	0
+s_16993	DUOX1	0
+s_17119	DUT	0
+s_17168	DYNC2LI1	0
+s_17195	DYRK1B	0
+s_17214	DYX1C1	0
+s_17224	DZIP1L	0
+s_17229	E2F1	0
+s_17374	ECT2	0
+s_17432	EDN2	0
+s_17440	EDNRA	0
+s_17442	EDNRB	0
+s_17459	EEF1D	0
+s_1766	AKAP14	0
+s_17709	EHMT2	0
+s_17762	EIF2B4	0
+s_1779	AKAP4	0
+s_17811	EIF3E	0
+s_17901	EIF5A2	0
+s_17942	ELF1	0
+s_17959	ELF5	0
+s_18018	ELOF1	0
+s_18106	EMCN	0
+s_18119	EMID1	0
+s_18125	EMILIN1	0
+s_18145	EML2	0
+s_18170	EMR1	0
+s_18171	EMR1	0
+s_18273	ENPP3	0
+s_1834	AKR1B10	0
+s_18362	EPB41L1	0
+s_18365	EPB41L1	0
+s_18409	EPHA10	0
+s_18423	EPHA4	0
+s_18445	EPHA8	0
+s_18531	EPS8L3	0
+s_18567	ERBB2IP	0
+s_18600	ERCC4	0
+s_18710	ERRFI1	0
+s_18739	ESM1	0
+s_18757	ESR2	0
+s_18767	ESRRA	0
+s_18772	ESRRB	0
+s_18782	ESYT1	0
+s_18809	ETHE1	0
+s_18849	ETV3	0
+s_18865	ETV4	0
+s_18908	EVL	0
+s_18920	EVX2	0
+s_18965	EXOC3L4	0
+s_19006	EXOSC3	0
+s_19048	EXTL2	0
+s_19126	F7	0
+s_19215	FAIM	0
+s_19254	FAM104A	0
+s_19255	FAM104B	0
+s_19499	FAM159A	0
+s_19605	FAM173B	0
+s_19614	FAM175B	0
+s_19633	FAM178A	0
+s_19664	FAM183A	0
+s_19674	FAM186A	0
+s_19699	FAM189B	0
+s_1971	ALDH8A1	0
+s_19728	FAM193A	0
+s_19736	FAM194A	0
+s_19744	FAM195B	0
+s_19747	FAM195B	0
+s_19859	FAM213B	0
+s_1992	ALG1	0
+s_200	ABCC2	0
+s_20007	FAM53A	0
+s_20077	FAM65B	0
+s_20080	FAM65C	0
+s_20106	FAM71B	0
+s_20116	FAM71E1	0
+s_20130	FAM73A	0
+s_20176	FAM83B	0
+s_2023	ALG3	0
+s_20269	FANCC	0
+s_20325	FAS	0
+s_2037	ALG9	0
+s_20377	FAXC	0
+s_20487	FBXO11	0
+s_2053	ALKBH4	0
+s_20616	FBXO7	0
+s_20635	FBXW2	0
+s_20686	FCGR1A	0
+s_20794	FEM1C	0
+s_20861	FGD1	0
+s_2092	ALOX5AP	0
+s_20946	FGF5	0
+s_21104	FIP1L1	0
+s_21231	FLT4	0
+s_21281	FMO4	0
+s_21342	FNDC5	0
+s_21375	FOLR1	0
+s_21504	FOXP1	0
+s_21627	FRMD8	0
+s_21642	FRRS1	0
+s_21650	FRS3	0
+s_21725	FTH1	0
+s_21736	FTSJ1	0
+s_21781	FUT10	0
+s_21813	FUZ	0
+s_21845	FXYD5	0
+s_21887	FZD8	0
+s_21895	G0S2	0
+s_21912	G6PC2	0
+s_21927	GAB1	0
+s_22006	GABRG2	0
+s_22033	GAD1	0
+s_2205	AMELX	0
+s_22151	GALNT5	0
+s_2226	AMIGO2	0
+s_22316	GATAD2A	0
+s_2238	AMMECR1L	0
+s_22485	GCNT2	0
+s_22537	GDF5	0
+s_22595	GEMIN5	0
+s_22608	GEMIN8	0
+s_22699	GGCX	0
+s_22715	GGPS1	0
+s_22741	GH1	0
+s_22810	GIMAP8	0
+s_2306	ANAPC11	0
+s_23236	GNAS	0
+s_23343	GNPDA1	0
+s_23423	GOLT1B	0
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+s_23683	GPR132	0
+s_2376	ANGPTL6	0
+s_23767	GPR161	0
+s_23963	GPT2	0
+s_23969	GPX2	0
+s_24129	GRIN2D	0
+s_24146	GRIP1	0
+s_24174	GRM3	0
+s_24199	GRM8	0
+s_24201	GRN	0
+s_24204	GRP	0
+s_24320	GSTCD	0
+s_24383	GTF2A2	0
+s_24430	GTF3C1	0
+s_24448	GTF3C5	0
+s_24533	GUK1	0
+s_2464	ANKRD10	0
+s_24644	HAAO	0
+s_24664	HADHB	0
+s_24741	HAT1	0
+s_24916	HDAC8	0
+s_24922	HDAC9	0
+s_24936	HDGF	0
+s_2497	ANKRD18A	0
+s_25016	HECTD3	0
+s_25027	HECW2	0
+s_2509	ANKRD23	0
+s_25157	HESX1	0
+s_25264	HHLA3	0
+s_25337	HIPK4	0
+s_25380	HIST1H2BC	0
+s_2539	ANKRD33	0
+s_25606	HMGCL	0
+s_25692	HNF1B	0
+s_25696	HNF4A	0
+s_25732	HNRNPCL1	0
+s_2579	ANKRD44	0
+s_2580	ANKRD44	0
+s_25914	HOXC6	0
+s_25988	HPD	0
+s_26064	HRC	0
+s_26290	HSPA8	0
+s_26388	HTR3D	0
+s_26556	ICT1	0
+s_26557	ICT1	0
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+s_26858	IGFBP4	0
+s_26862	IGFBP5	0
+s_26987	IKBKG	0
+s_27005	IKZF3	0
+s_27030	IL12A	0
+s_27046	IL13	0
+s_27111	IL17REL	0
+s_27114	IL18	0
+s_27146	IL1F10	0
+s_27151	IL1R1	0
+s_27183	IL1RN	0
+s_27202	IL20RB	0
+s_27215	IL22RA1	0
+s_27236	IL24	0
+s_27265	IL2RA	0
+s_27266	IL2RA	0
+s_2729	ANXA11	0
+s_27311	IL36G	0
+s_27324	IL37	0
+s_27330	IL4I1	0
+s_27332	IL4I1	0
+s_27347	IL6R	0
+s_27412	IMPA1	0
+s_27482	ING4	0
+s_27571	INS	0
+s_27580	INSIG1	0
+s_27604	INSM2	0
+s_27693	IP6K3	0
+s_27760	IQCF1	0
+s_27828	IRAK2	0
+s_27843	IRF1	0
+s_27868	IRF6	0
+s_27958	IST1	0
+s_27995	ITGA11	0
+s_28004	ITGA3	0
+s_2807	AP2A1	0
+s_28135	ITM2A	0
+s_28192	ITSN1	0
+s_28215	IYD	0
+s_2828	AP3B2	0
+s_28288	JMJD1C	0
+s_2837	AP3S1	0
+s_28436	KAT8	0
+s_28463	KAZN	0
+s_28510	KCNA10	0
+s_28650	KCNIP1	0
+s_28680	KCNJ13	0
+s_28725	KCNK10	0
+s_28742	KCNK16	0
+s_28750	KCNK18	0
+s_28834	KCNQ4	0
+s_29117	KIAA0284	0
+s_29140	KIAA0430	0
+s_29312	KIAA1598	0
+s_29387	KIF13A	0
+s_29471	KIF2B	0
+s_29554	KIRREL3	0
+s_29561	KISS1	0
+s_29590	KLC3	0
+s_29591	KLC4	0
+s_29627	KLF15	0
+s_2968	APLP1	0
+s_29735	KLHL18	0
+s_29841	KLHL8	0
+s_29843	KLHL9	0
+s_29897	KLK8	0
+s_299	ABHD14B	0
+s_30162	KRT8	0
+s_30215	KRTAP12-3	0
+s_30263	KRTAP26-1	0
+s_30311	KRTAP9-3	0
+s_30357	L3MBTL1	0
+s_30378	LACE1	0
+s_30446	LAMC1	0
+s_3051	APOF	0
+s_30538	LARP7	0
+s_30551	LAS1L	0
+s_30559	LAT	0
+s_30590	LBR	0
+s_3067	APOL3	0
+s_30738	LDHD	0
+s_30741	LDLR	0
+s_30745	LDLRAD1	0
+s_30755	LDLRAP1	0
+s_30825	LEPRE1	0
+s_30864	LGALS12	0
+s_30870	LGALS14	0
+s_31007	LIAS	0
+s_31011	LIF	0
+s_31023	LIG4	0
+s_31115	LIN9	0
+s_31142	LIPF	0
+s_31160	LIPJ	0
+s_3120	AQP10	0
+s_31206	LMAN2	0
+s_31223	LMBRD2	0
+s_31279	LMOD1	0
+s_31294	LMX1A	0
+s_31338	LOX	0
+s_31344	LOXHD1	0
+s_3141	AQP6	0
+s_31415	LPHN3	0
+s_31436	LPL	0
+s_3145	AQP7	0
+s_31454	LPPR5	0
+s_3146	AQP8	0
+s_3152	AQP9	0
+s_31550	LRP12	0
+s_31587	LRP8	0
+s_316	ABHD2	0
+s_31657	LRRC25	0
+s_3173	ARAP2	0
+s_31733	LRRC42	0
+s_31805	LRRC71	0
+s_31854	LRRFIP2	0
+s_32	AADACL2	0
+s_32012	LTBP1	0
+s_32024	LTBP3	0
+s_32073	LUZP1	0
+s_32131	LY75-CD302	0
+s_32160	LYL1	0
+s_32271	LZIC	0
+s_32315	MACROD2	0
+s_32407	MAGEC3	0
+s_32418	MAGEE2	0
+s_32434	MAGI3	0
+s_32474	MAMDC4	0
+s_32504	MAN1A2	0
+s_32521	MAN2B1	0
+s_32555	MANSC1	0
+s_32594	MAP2	0
+s_32656	MAP3K7	0
+s_32657	MAP3K7	0
+s_32687	MAP6	0
+s_32689	MAP6	0
+s_32700	MAP7	0
+s_32773	MAPKAP1	0
+s_32837	4-Mar	0
+s_32844	6-Mar	0
+s_32962	MATN3	0
+s_3297	ARHGAP26	0
+s_33017	MBD4	0
+s_3312	ARHGAP30	0
+s_33131	MCF2	0
+s_3317	ARHGAP30	0
+s_33192	MCM9	0
+s_33218	MCRS1	0
+s_33319	MECP2	0
+s_33476	MEIS2	0
+s_33561	METTL1	0
+s_33565	METTL11B	0
+s_33625	METTL23	0
+s_33723	MFNG	0
+s_33750	MFSD2B	0
+s_338	ABI1	0
+s_33812	MGAT4B	0
+s_33844	MGST1	0
+s_33885	MICAL3	0
+s_33958	MINA	0
+s_34151	MLXIPL	0
+s_34213	MMP2	0
+s_34226	MMP24	0
+s_34294	MNT	0
+s_34310	MOB1B	0
+s_3432	ARHGEF26	0
+s_3437	ARHGEF3	0
+s_34406	MORF4L2	0
+s_34464	MPDZ	0
+s_34474	MPHOSPH10	0
+s_34503	MPND	0
+s_34529	MPP7	0
+s_34624	MRI1	0
+s_34715	MRPL33	0
+s_34909	MRRF	0
+s_34918	MRVI1	0
+s_34944	MS4A14	0
+s_35008	MSH4	0
+s_35013	MSH4	0
+s_35139	MTA1	0
+s_35186	MTF1	0
+s_3526	ARL11	0
+s_35281	MTMR7	0
+s_35375	MUC1	0
+s_35396	MUC21	0
+s_35406	MUC4	0
+s_3544	ARL16	0
+s_35478	MXD1	0
+s_35480	MXD3	0
+s_35497	MXRA7	0
+s_35519	MYBPC1	0
+s_35569	MYD88	0
+s_35596	MYH11	0
+s_35682	MYLK	0
+s_35796	MYOF	0
+s_35811	MYOM3	0
+s_35836	MYPOP	0
+s_35923	NAA60	0
+s_35935	NAALADL2	0
+s_35964	NACC1	0
+s_35973	NADK	0
+s_36044	NANS	0
+s_36143	NAV2	0
+s_36222	NCAPH2	0
+s_36273	NCKAP1L	0
+s_36282	NCKAP5	0
+s_36286	NCKIPSD	0
+s_36335	NCR1	0
+s_36342	NCR3	0
+s_36351	NCS1	0
+s_36386	NDOR1	0
+s_36482	NDUFAF3	0
+s_3650	ARMCX4	0
+s_36519	NDUFB5	0
+s_3668	ARNTL2	0
+s_3670	ARPC1A	0
+s_36703	NELF	0
+s_36740	NEU1	0
+s_36825	NFATC2	0
+s_37035	NINJ1	0
+s_37048	NIPA1	0
+s_37084	NIT1	0
+s_37091	NIT2	0
+s_37103	NKAIN4	0
+s_37151	NKX2-5	0
+s_37222	NLRC4	0
+s_37258	NLRP3	0
+s_37274	NLRP7	0
+s_37286	NMB	0
+s_37326	NME7	0
+s_37384	NMUR1	0
+s_37407	NOA1	0
+s_37430	NODAL	0
+s_37438	NOL10	0
+s_37451	NOL4	0
+s_37502	NOS1	0
+s_37572	NOX1	0
+s_37579	NOX4	0
+s_37655	NPHP1	0
+s_37801	NR1H4	0
+s_37810	NR1I3	0
+s_37816	NR2C1	0
+s_37863	NR4A2	0
+s_37868	NR4A3	0
+s_3791	ARV1	0
+s_37945	NRL	0
+s_37963	NRP2	0
+s_37972	NRSN2	0
+s_37991	NRXN2	0
+s_38022	NSFL1C	0
+s_38097	NT5DC2	0
+s_38124	NTM	0
+s_3813	ASAP1	0
+s_38169	NTRK2	0
+s_38179	NTSR2	0
+s_38202	NUBP2	0
+s_38205	NUBPL	0
+s_38212	NUCB2	0
+s_38225	NUDCD2	0
+s_38305	NUDT7	0
+s_38336	NUMB	0
+s_3841	ASB11	0
+s_38429	NUSAP1	0
+s_38431	NUSAP1	0
+s_38516	NYX	0
+s_38525	OAS1	0
+s_38567	OBSL1	0
+s_38592	OCM2	0
+s_38602	ODAM	0
+s_38679	OGG1	0
+s_38683	OGG1	0
+s_38747	OLR1	0
+s_3881	ASB4	0
+s_38824	OPRM1	0
+s_38825	OPRM1	0
+s_38832	OPTC	0
+s_3888	ASB6	0
+s_38901	OR10W1	0
+s_38963	OR1A2	0
+s_39135	OR2T8	0
+s_39192	OR4D6	0
+s_39237	OR4X2	0
+s_39262	OR51F2	0
+s_3938	ASGR2	0
+s_39500	OR7D4	0
+s_39620	OSBP2	0
+s_39650	OSBPL3	0
+s_39654	OSBPL5	0
+s_39737	OTOA	0
+s_39747	OTOF	0
+s_39802	OTUD7A	0
+s_39865	OXSM	0
+s_39964	PABPC1	0
+s_39972	PABPC4	0
+s_39987	PACRGL	0
+s_40004	PACSIN2	0
+s_40016	PADI2	0
+s_40055	PAGE2B	0
+s_40089	PAK2	0
+s_40120	PALM	0
+s_40137	PAM	0
+s_40148	PAN2	0
+s_40156	PANK1	0
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+s_40182	PAOX	0
+s_40184	PAPD4	0
+s_40227	PAQR5	0
+s_4025	ASS1	0
+s_40261	PARD6B	0
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+s_40316	PARP3	0
+s_40392	PAX3	0
+s_40395	PAX3	0
+s_40397	PAX3	0
+s_4041	ASTN2	0
+s_40436	PBOV1	0
+s_40457	PCBD1	0
+s_40487	PCDH11X	0
+s_40510	PCDH19	0
+s_40521	PCDH7	0
+s_40597	PCDHB2	0
+s_40606	PCDHB8	0
+s_40925	PDE2A	0
+s_40936	PDE4A	0
+s_41027	PDE8B	0
+s_41077	PDIA2	0
+s_41084	PDIA4	0
+s_41138	PDLIM5	0
+s_41141	PDLIM7	0
+s_41145	PDP1	0
+s_41185	PDYN	0
+s_41279	PELP1	0
+s_41294	PER2	0
+s_41347	PEX19	0
+s_41439	PFN4	0
+s_41474	PGBD2	0
+s_41620	PHF13	0
+s_41701	PHKG2	0
+s_41772	PHYHIPL	0
+s_41807	PIAS1	0
+s_41879	PIGR	0
+s_41955	PIK3CD	0
+s_42051	PIP5KL1	0
+s_42055	PIP5KL1	0
+s_42068	PISD	0
+s_42081	PITPNC1	0
+s_4209	ATL2	0
+s_42107	PITX3	0
+s_42123	PJA1	0
+s_42148	PKD2L2	0
+s_42162	PKHD1L1	0
+s_42181	PKM	0
+s_42215	PKP3	0
+s_4224	ATN1	0
+s_42243	PLA2G16	0
+s_42261	PLA2G2E	0
+s_42292	PLA2G5	0
+s_42305	PLA2R1	0
+s_42321	PLAC8L1	0
+s_42351	PLB1	0
+s_42366	PLCB2	0
+s_42392	PLCH1	0
+s_42446	PLEC	0
+s_42467	PLEKHA5	0
+s_42519	PLEKHG6	0
+s_42536	PLEKHM1	0
+s_42544	PLEKHM3	0
+s_42554	PLEKHO1	0
+s_42560	PLEKHS1	0
+s_42616	PLOD1	0
+s_42663	PLSCR5	0
+s_42751	PML	0
+s_42792	PNCK	0
+s_42839	PNN	0
+s_42932	PODXL2	0
+s_43016	POLK	0
+s_43060	POLR2C	0
+s_43122	POLR3G	0
+s_43155	POMT1	0
+s_43158	POMT1	0
+s_43253	POU6F2	0
+s_43302	PPAPDC1B	0
+s_43354	PPFIA1	0
+s_4339	ATP2C1	0
+s_43430	PPIL4	0
+s_43445	PPM1A	0
+s_43527	PPP1R12B	0
+s_43533	PPP1R13B	0
+s_43542	PPP1R14A	0
+s_43623	PPP1R3F	0
+s_43629	PPP1R42	0
+s_43789	PQLC2	0
+s_43834	PRAMEF13	0
+s_43837	PRAMEF16	0
+s_43862	PRB4	0
+s_4406	ATP5S	0
+s_44065	PRKACB	0
+s_44075	PRKAG2	0
+s_44091	PRKAR1B	0
+s_441	AC013461.1	0
+s_44162	PRKRA	0
+s_44181	PRLH	0
+s_44189	PRLR	0
+s_44260	PROKR1	0
+s_44270	PROM1	0
+s_44298	PRPF18	0
+s_44319	PRPF39	0
+s_44361	PRPSAP2	0
+s_44460	PRRT2	0
+s_44485	PRSS12	0
+s_4457	ATP6V0E2	0
+s_44634	PSG11	0
+s_44654	PSG8	0
+s_44726	PSMB5	0
+s_44739	PSMB8	0
+s_44746	PSMB9	0
+s_44782	PSMD13	0
+s_44808	PSMD8	0
+s_44910	PTCH1	0
+s_44935	PTCHD4	0
+s_45050	PTK2	0
+s_4507	ATP6V1H	0
+s_45113	PTPN12	0
+s_45128	PTPN18	0
+s_45139	PTPN22	0
+s_45141	PTPN22	0
+s_45165	PTPN7	0
+s_4523	ATP8A1	0
+s_45249	PTPRU	0
+s_45290	PUF60	0
+s_45296	PUM1	0
+s_45536	R3HCC1L	0
+s_45566	RAB11FIP1	0
+s_45586	RAB11FIP5	0
+s_45600	RAB15	0
+s_45601	RAB15	0
+s_45604	RAB17	0
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+s_45796	RAB9B	0
+s_45894	RAD51AP1	0
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+s_45960	RAI14	0
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+s_46068	RAP1GDS1	0
+s_46107	RAPH1	0
+s_46265	RASSF4	0
+s_46298	RAVER2	0
+s_46321	RBBP5	0
+s_46328	RBBP7	0
+s_46355	RBFOX3	0
+s_46452	RBM39	0
+s_46581	RCAN1	0
+s_46634	RCOR2	0
+s_46639	RCSD1	0
+s_46646	RD3	0
+s_46657	RDH10	0
+s_46672	RDH13	0
+s_46717	REEP1	0
+s_46821	RERG	0
+s_46827	RERGL	0
+s_46848	RETNLB	0
+s_46976	RFXANK	0
+s_47005	RGL2	0
+s_4703	AXIN1	0
+s_47100	RGS3	0
+s_47144	RHAG	0
+s_47186	RHD	0
+s_47216	RHOC	0
+s_47394	RIPPLY1	0
+s_47413	RLBP1	0
+s_47554	RNF130	0
+s_47584	RNF144A	0
+s_47594	RNF145	0
+s_47622	RNF165	0
+s_47710	RNF215	0
+s_47777	RNF44	0
+s_47780	RNF6	0
+s_47786	RNF7	0
+s_47791	RNF8	0
+s_47915	RP11-178D12.1	0
+s_47946	RP11-428C6.1	0
+s_47969	RP11-6F2.7	0
+s_47970	RP11-6F2.7	0
+s_48013	RP4-697K14.7	0
+s_48066	RPAP3	0
+s_48073	RPE	0
+s_48097	RPH3AL	0
+s_48098	RPH3AL	0
+s_48179	RPL36	0
+s_48201	RPL6	0
+s_4837	B4GALT5	0
+s_48399	RPUSD2	0
+s_4841	B4GALT6	0
+s_48414	RQCD1	0
+s_4843	B4GALT7	0
+s_48438	RREB1	0
+s_48461	RRNAD1	0
+s_48488	RRS1	0
+s_48512	RSC1A1	0
+s_4868	BACE1	0
+s_48714	RUSC1	0
+s_48860	S100B	0
+s_48874	S100Z	0
+s_48933	SALL3	0
+s_4898	BAG4	0
+s_49069	SASS6	0
+s_49192	SCARB1	0
+s_49246	SCGB1D1	0
+s_4925	BAIAP2	0
+s_49278	SCIN	0
+s_49297	SCML1	0
+s_49354	SCN7A	0
+s_49570	SDR9C7	0
+s_49599	SEC14L2	0
+s_49625	SEC22A	0
+s_49651	SEC24D	0
+s_49668	SEC61A2	0
+s_49706	SELE	0
+s_4972	BARHL2	0
+s_49775	SEMA4F	0
+s_49799	SEMA6D	0
+s_49844	SEPP1	0
+s_49859	12-Sep	0
+s_49881	5-Sep	0
+s_49934	SERINC5	0
+s_49957	SERPINA3	0
+s_50004	SERPINB5	0
+s_5001	BAX	0
+s_5006	BAZ1A	0
+s_50112	SETD3	0
+s_50123	SETD6	0
+s_50127	SETD7	0
+s_50162	SEZ6L2	0
+s_5022	BAZ2B	0
+s_5026	BBC3	0
+s_50280	SGCA	0
+s_50284	SGCB	0
+s_50342	SGPP2	0
+s_50388	SH2D3C	0
+s_50391	SH2D3C	0
+s_50491	SH3KBP1	0
+s_505	ACACB	0
+s_50517	SH3TC2	0
+s_5056	BBS4	0
+s_50560	SHE	0
+s_50596	SHISA6	0
+s_50652	SI	0
+s_50684	SIGLEC1	0
+s_50692	SIGLEC10	0
+s_50693	SIGLEC11	0
+s_50722	SIGLEC9	0
+s_50761	SIPA1	0
+s_50779	SIRPB1	0
+s_50780	SIRPB1	0
+s_51043	SLC15A1	0
+s_51096	SLC16A5	0
+s_51179	SLC1A2	0
+s_51276	SLC22A5	0
+s_51312	SLC24A4	0
+s_51344	SLC25A13	0
+s_51482	SLC25A5	0
+s_51528	SLC26A9	0
+s_51555	SLC28A1	0
+s_51613	SLC2A6	0
+s_51660	SLC30A6	0
+s_51715	SLC35A4	0
+s_51729	SLC35B3	0
+s_51774	SLC35F3	0
+s_51783	SLC35G2	0
+s_51872	SLC39A14	0
+s_51904	SLC39A8	0
+s_52017	SLC4A2	0
+s_52093	SLC5A5	0
+s_52206	SLC7A14	0
+s_52255	SLC8A2	0
+s_52313	SLC9B1	0
+s_52364	SLCO4C1	0
+s_52383	SLFN13	0
+s_52421	SLITRK4	0
+s_52435	SLMO1	0
+s_52485	SMAP1	0
+s_5253	BCO2	0
+s_52574	SMCR8	0
+s_52587	SMG5	0
+s_52601	SMG7	0
+s_52617	SMO	0
+s_52642	SMPD4	0
+s_5268	BDH1	0
+s_52758	SNAPIN	0
+s_52784	SNIP1	0
+s_52787	SNIP1	0
+s_52833	SNRPB2	0
+s_52989	SNX8	0
+s_53	AAK1	0
+s_53048	SON	0
+s_53055	SORBS1	0
+s_53109	SOSTDC1	0
+s_53151	SOX30	0
+s_53153	SOX30	0
+s_53181	SP100	0
+s_53438	SPDYC	0
+s_53476	SPERT	0
+s_53512	SPI1	0
+s_53525	SPIN1	0
+s_53535	SPINK1	0
+s_53555	SPINK6	0
+s_53574	SPINT1	0
+s_53639	SPP1	0
+s_53691	SPRR3	0
+s_53740	SPTA1	0
+s_53830	SREK1	0
+s_53993	SSBP1	0
+s_54019	SSPN	0
+s_54054	SSTR5	0
+s_54078	ST14	0
+s_54092	ST3GAL3	0
+s_54099	ST3GAL3	0
+s_54292	STAT5A	0
+s_54305	STATH	0
+s_54314	STAU2	0
+s_54327	STC2	0
+s_5437	BIN2	0
+s_54380	STK17A	0
+s_54403	STK3	0
+s_54480	STON1	0
+s_54588	STX5	0
+s_54609	STXBP4	0
+s_54639	SUCLG1	0
+s_54645	SUCNR1	0
+s_54679	SULT1B1	0
+s_54684	SULT1C3	0
+s_54704	SULT2B1	0
+s_54758	SUPT4H1	0
+s_54772	SUPV3L1	0
+s_54801	SUSD4	0
+s_54866	SWT1	0
+s_5492	BLOC1S3	0
+s_54942	SYNDIG1	0
+s_5503	BMF	0
+s_55131	SZT2	0
+s_55147	TAAR8	0
+s_55187	TACO1	0
+s_55464	TAS2R8	0
+s_55509	TBC1D10C	0
+s_55520	TBC1D14	0
+s_55528	TBC1D15	0
+s_55577	TBC1D30	0
+s_55709	TBX21	0
+s_55725	TBX5	0
+s_55844	TCF4	0
+s_55845	TCF4	0
+s_55862	TCF7L2	0
+s_55868	TCHH	0
+s_5588	BNIP2	0
+s_55911	TCP10L2	0
+s_55913	TCP11	0
+s_55922	TCP11L2	0
+s_55946	TCTN1	0
+s_56006	TEAD2	0
+s_56014	TEAD4	0
+s_56080	TEN1	0
+s_56099	TERF1	0
+s_56118	TES	0
+s_56167	TEX13B	0
+s_5618	BOK	0
+s_56207	TEX9	0
+s_56284	TFEC	0
+s_56297	TFG	0
+s_56361	TGFBR2	0
+s_56373	TGIF1	0
+s_56415	TGS1	0
+s_56492	THEM4	0
+s_56509	THNSL1	0
+s_5655	BPIFA1	0
+s_56621	TIFA	0
+s_56646	TIMD4	0
+s_56684	TIMM8B	0
+s_56805	TLL1	0
+s_56819	TLR10	0
+s_56826	TLR3	0
+s_56873	TM4SF18	0
+s_57016	TMED10	0
+s_57082	TMEM106C	0
+s_57087	TMEM107	0
+s_57150	TMEM127	0
+s_57173	TMEM132B	0
+s_57181	TMEM132E	0
+s_57189	TMEM134	0
+s_57288	TMEM164	0
+s_57299	TMEM167B	0
+s_57409	TMEM194A	0
+s_57422	TMEM198	0
+s_57429	TMEM2	0
+s_57475	TMEM212	0
+s_57531	TMEM231	0
+s_57568	TMEM245	0
+s_57700	TMEM54	0
+s_57873	TMF1	0
+s_57992	TMUB1	0
+s_58180	TNIP1	0
+s_58211	TNKS2	0
+s_58237	TNNT1	0
+s_58256	TNPO2	0
+s_58259	TNPO3	0
+s_58309	TOM1	0
+s_58485	TP73	0
+s_58503	TPD52	0
+s_58533	TPI1	0
+s_5857	BSPRY	0
+s_58612	TPSG1	0
+s_58633	TRA2B	0
+s_58655	TRAF3	0
+s_58668	TRAF3IP2	0
+s_58690	TRAK1	0
+s_58809	TRIB2	0
+s_58962	TRIM50	0
+s_58968	TRIM52	0
+s_59050	TRIO	0
+s_59107	TRMT1L	0
+s_59133	TRMT61B	0
+s_59160	TROVE2	0
+s_59173	TRPC4	0
+s_59196	TRPM1	0
+s_59204	TRPM3	0
+s_59311	TSEN54	0
+s_59332	TSHB	0
+s_59340	TSHZ2	0
+s_59360	TSNARE1	0
+s_5952	BTG4	0
+s_59539	TTC21A	0
+s_59602	TTC39A	0
+s_59654	TTC9C	0
+s_59717	TTLL6	0
+s_5974	BTN3A1	0
+s_59748	TTYH1	0
+s_59807	TUBB2B	0
+s_59859	TULP1	0
+s_59870	TULP3	0
+s_59955	TXNDC8	0
+s_59983	TXNRD2	0
+s_600	ACE	0
+s_60169	UBE2H	0
+s_60209	UBE2Q2	0
+s_60237	UBE2V2	0
+s_60248	UBE3A	0
+s_60250	UBE3B	0
+s_60373	UBXN6	0
+s_60396	UCKL1	0
+s_60423	UEVLD	0
+s_60438	UFSP1	0
+s_60449	UGDH	0
+s_60517	UGT2A1	0
+s_60542	UGT3A1	0
+s_60603	UMODL1	0
+s_60614	UNC119	0
+s_60649	UNC5B	0
+s_6068	C10orf125	0
+s_6071	C10orf128	0
+s_60753	UQCRC2	0
+s_60780	URM1	0
+s_60839	USP15	0
+s_60851	USP19	0
+s_60925	USP4	0
+s_6100	C10orf53	0
+s_6106	C10orf54	0
+s_61149	VAV2	0
+s_61173	VCAM1	0
+s_61178	VCAN	0
+s_61221	VEPH1	0
+s_61263	VIL1	0
+s_61341	VPS13C	0
+s_61344	VPS13D	0
+s_61367	VPS29	0
+s_61529	VWA5A	0
+s_61531	VWA5A	0
+s_61587	WBP1	0
+s_61595	WBP2	0
+s_61623	WDFY1	0
+s_61640	WDHD1	0
+s_61662	WDR16	0
+s_61695	WDR26	0
+s_61739	WDR44	0
+s_6200	C11orf49	0
+s_62019	WISP1	0
+s_62098	WNT5B	0
+s_62114	WNT8A	0
+s_62171	WTAP	0
+s_62249	XKR3	0
+s_62257	XKR6	0
+s_62275	XPC	0
+s_62320	XRCC4	0
+s_62361	YAE1D1	0
+s_62550	ZBBX	0
+s_62559	ZBED6	0
+s_62567	ZBTB1	0
+s_62624	ZBTB37	0
+s_62657	ZBTB47	0
+s_62759	ZC3H7A	0
+s_62845	ZDHHC11	0
+s_62862	ZDHHC16	0
+s_62881	ZDHHC2	0
+s_6292	C12orf23	0
+s_62975	ZFC3H1	0
+s_63034	ZFP64	0
+s_63104	ZFYVE27	0
+s_63107	ZFYVE27	0
+s_63114	ZFYVE28	0
+s_63217	ZMIZ2	0
+s_63228	ZMYM3	0
+s_63234	ZMYM3	0
+s_6326	C12orf49	0
+s_63302	ZNF132	0
+s_63362	ZNF167	0
+s_63435	ZNF200	0
+s_63487	ZNF223	0
+s_63594	ZNF276	0
+s_636	ACO1	0
+s_63746	ZNF354B	0
+s_63755	ZNF362	0
+s_6376	C12orf74	0
+s_63903	ZNF436	0
+s_63905	ZNF438	0
+s_63923	ZNF442	0
+s_63934	ZNF445	0
+s_63935	ZNF446	0
+s_63964	ZNF469	0
+s_63983	ZNF480	0
+s_6409	C14orf105	0
+s_64137	ZNF554	0
+s_64241	ZNF586	0
+s_6427	C14orf133	0
+s_64356	ZNF639	0
+s_64393	ZNF655	0
+s_64396	ZNF655	0
+s_64419	ZNF668	0
+s_64424	ZNF669	0
+s_64459	ZNF682	0
+s_64479	ZNF688	0
+s_64581	ZNF746	0
+s_64627	ZNF772	0
+s_64638	ZNF776	0
+s_64652	ZNF780A	0
+s_64791	ZNF85	0
+s_64851	ZNRF3	0
+s_64871	ZPBP	0
+s_64878	ZPLD1	0
+s_64898	ZSCAN10	0
+s_64930	ZSCAN30	0
+s_64997	ZYG11A	0
+s_6525	C15orf39	0
+s_6592	C16orf13	0
+s_6639	C16orf62	0
+s_6707	C17orf102	0
+s_6710	C17orf104	0
+s_6728	C17orf112	0
+s_6736	C17orf39	0
+s_6794	C17orf72	0
+s_6814	C17orf80	0
+s_6849	C18orf21	0
+s_6859	C18orf32	0
+s_6862	C18orf34	0
+s_6906	C19orf38	0
+s_7053	C1QTNF7	0
+s_7128	C1orf122	0
+s_7144	C1orf130	0
+s_7162	C1orf144	0
+s_7234	C1orf198	0
+s_7341	C1orf63	0
+s_747	ACSL1	0
+s_76	AARS2	0
+s_7674	C2orf57	0
+s_7681	C2orf62	0
+s_7692	C2orf63	0
+s_77	AARSD1	0
+s_78	AARSD1	0
+s_781	ACSS1	0
+s_786	ACSS2	0
+s_7940	C4orf26	0
+s_7970	C4orf37	0
+s_8000	C4orf52	0
+s_804	ACTB	0
+s_8073	C5orf51	0
+s_8141	C6orf162	0
+s_8227	C7orf10	0
+s_8281	C7orf59	0
+s_8318	C8A	0
+s_8403	C9orf100	0
+s_8470	C9orf24	0
+s_8699	CACNA1G	0
+s_8705	CACNA1I	0
+s_871	ACTR8	0
+s_874	ACTR8	0
+s_8757	CACNG5	0
+s_8797	CADPS	0
+s_8879	CALR	0
+s_8910	CAMK2B	0
+s_893	ACVR1B	0
+s_8930	CAMKK1	0
+s_8954	CAMSAP1	0
+s_9064	CAPRIN1	0
+s_9077	CAPSL	0
+s_9109	CARD17	0
+s_913	ACY1	0
+s_9171	CASD1	0
+s_9196	CASP10	0
+s_9285	CATSPER3	0
+s_9506	CCDC120	0
+s_9507	CCDC121	0
+s_952	ADAM12	0
+s_9584	CCDC149	0
+s_964	ADAM18	0
+s_9646	CCDC170	0
+s_9710	CCDC40	0
+s_9732	CCDC48	0
+s_976	ADAM21	0
+s_9763	CCDC62	0
+s_9868	CCDC89	0
+s_991	ADAM30	0
+s_9925	CCL1	0
+s_9973	CCL26	0
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/output_countsummary.Rnw	Wed Apr 04 11:03:29 2018 -0400
@@ -0,0 +1,237 @@
+% This is a template file for Sweave used in MAGeCK
+% Author: Wei Li, Shirley Liu lab
+% Do not modify lines beginning with "#__".
+\documentclass{article}
+
+\usepackage{amsmath}
+\usepackage{amscd}
+\usepackage[tableposition=top]{caption}
+\usepackage{ifthen}
+\usepackage{fullpage}
+\usepackage[utf8]{inputenc}
+% \usepackage{longtable}
+
+\begin{document}
+\setkeys{Gin}{width=0.9\textwidth}
+
+\title{MAGeCK Count Report}
+\author{Wei Li}
+
+\maketitle
+
+
+\tableofcontents
+
+\section{Summary}
+
+%Function definition
+<<label=funcdef,include=FALSE,echo=FALSE>>=
+genreporttable<-function(filelist,labellist,reads,mappedreads){
+  xtb=data.frame(Label=labellist,Reads=reads,MappedReads=mappedreads,MappedPercentage=mappedreads/reads);
+  colnames(xtb)=c("Label","Reads","Mapped","Percentage");
+  return (xtb);
+}
+genreporttable2<-function(filelist,labellist,sgrnas,zerocounts,gini){
+  xtb=data.frame(Label=labellist,TotalsgRNAs=sgrnas,ZeroCounts=zerocounts,GiniIndex=gini);
+  colnames(xtb)=c("Label","TotalsgRNA","ZeroCounts","GiniIndex");
+  return (xtb);
+}
+genreporttable3<-function(filelist,labellist){
+  xtb=data.frame(File=filelist,Label=labellist);
+  colnames(xtb)=c("File","Label");
+  return (xtb);
+}
+
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F");
+
+
+
+genboxplot<-function(filename,...){
+  #slmed=read.table(filename,header=T)
+  slmed=read.table(filename,header=T)
+  slmat=as.matrix(slmed[,c(-1,-2)])
+  slmat_log=log2(slmat+1)
+
+  boxplot(slmat_log,pch='.',las=2,ylab='log2(read counts)',cex.axis=0.8,...)
+}
+
+
+genhistplot<-function(filename,isfile=T,...){
+  if(isfile){
+    slmed=read.table(filename,header=T)
+  }else{
+    slmed=filename;
+  }
+  tabsmat=as.matrix(log2(slmed[,c(-1,-2)]+1))
+  colnames(tabsmat)=colnames(slmed)[c(-1,-2)]
+  samplecol=colors[((1:ncol(tabsmat)) %% length(colors)) ]
+  if(ncol(tabsmat)>=1){
+    histlist=lapply(1:ncol(tabsmat),function(X){ return (hist(tabsmat[,X],plot=F,breaks=40)) })
+    xrange=range(unlist(lapply(histlist,function(X){X$mids})))
+    yrange=range(unlist(lapply(histlist,function(X){X$counts})))
+    hst1=histlist[[1]]
+    plot(hst1$mids,hst1$counts,type='b',pch=20,xlim=c(0,xrange[2]*1.2),ylim=c(0,yrange[2]*1.2),xlab='log2(counts)',ylab='Frequency',main='Distribution of read counts',col = samplecol[1], ... )
+  }
+  if(ncol(tabsmat)>=2){
+    for(i in 2:ncol(tabsmat)){
+      hstn=histlist[[i]]
+      lines(hstn$mids,hstn$counts,type='b',pch=20,col=samplecol[i])
+    }
+  }
+  legend('topright',colnames(tabsmat),pch=20,lwd=1,col=samplecol)
+}
+
+
+
+genclustering<-function(filename,...){
+  #slmed=read.table(filename,header=T)
+  slmed=read.table(filename,header=T)
+  slmat=as.matrix(slmed[,c(-1,-2)])
+  slmat_log=log2(slmat+1)
+
+  result=tryCatch({
+    library(gplots);
+    heatmap.2(cor(slmat_log),trace = 'none',density.info = 'none',cexRow = 0.8,cexCol = 0.8,offsetRow = -0.2,offsetCol = -0.2)
+  }, error=function(e){
+    heatmap(cor(slmat_log),scale='none',cexRow = 0.8,cexCol = 0.8,cex.axis=0.8,...)
+  });
+}
+
+ctfit_tx=0;
+
+
+panel.plot<-function(x,y,textnames=names(x),...){
+  par(new=TRUE)
+  m<-cbind(x,y)
+  plot(m,pch=20,xlim = range(x)*1.1,ylim=range(y)*1.1,...)
+  text(x,y,textnames,...)
+}
+
+
+genpcaplot<-function(filename,...){
+  #slmed=read.table(filename,header=T)
+  slmed=read.table(filename,header=T)
+  slmat=as.matrix(slmed[,c(-1,-2)])
+  slmat_log=log2(slmat+1)
+  ctfit_tx<<-prcomp(t(slmat_log),center=TRUE)
+
+  # par(mfrow=c(2,1));
+  samplecol=colors[((1:ncol(slmat)) %% length(colors)) ]
+  # first 2 PCA
+  #plot(ctfit_tx$x[,1],ctfit_tx$x[,2],xlab='PC1',ylab='PC2',main='First 2 PCs',col=samplecol,xlim=1.1*range(ctfit_tx$x[,1]),ylim=1.1*range(ctfit_tx$x[,2]));
+  #text(ctfit_tx$x[,1],ctfit_tx$x[,2],rownames(ctfit_tx$x),col=samplecol);
+  # par(mfrow=c(1,1));
+  if(length(samplecol)>2){
+    pairs(ctfit_tx$x[,1:3],panel=panel.plot,textnames=rownames(ctfit_tx$x),main='First 3 principle components',col=samplecol)
+  }else{
+    if(length(samplecol)>1){
+      pairs(ctfit_tx$x[,1:2],panel=panel.plot,textnames=rownames(ctfit_tx$x),main='First 2 principle components',col=samplecol)
+   }
+  }
+
+
+}
+
+genpcavar<-function(){
+  # % variance
+  varpca=ctfit_tx$sdev^2
+  varpca=varpca/sum(varpca)*100;
+  if(length(varpca)>10){
+    varpca=varpca[1:10];
+  }
+  plot(varpca,type='b',lwd=2,pch=20,xlab='PCs',ylab='% Variance explained');
+}
+
+@
+
+%__FILE_SUMMARY__
+
+The statistics of comparisons are listed in Table 1 and Table 2.
+The corresponding fastq files in each row are listed in Table 3.
+
+<<label=tab1,echo=FALSE,results=tex>>=
+library(xtable)
+filelist=c("input_0.gz");
+labellist=c("test1_fastq_gz");
+reads=c(2500);
+mappedreads=c(1453);
+totalsgrnas=c(2550);
+zerocounts=c(1276);
+giniindex=c(0.5266899931488773);
+
+cptable=genreporttable(filelist,labellist,reads,mappedreads);
+print(xtable(cptable, caption = "Summary of comparisons", label = "tab:one",
+    digits = c(0, 0, 0, 0,2),
+    align=c('c',  'c','c',  'c', 'c'),
+    table.placement = "tbp",
+    caption.placement = "top"))
+@
+
+<<label=tab2,echo=FALSE,results=tex>>=
+library(xtable)
+cptable=genreporttable2(filelist,labellist,totalsgrnas,zerocounts,giniindex);
+print(xtable(cptable, caption = "Summary of comparisons", label = "tab:two",
+    digits = c(0, 0,0, 0,2),
+    align=c('c',  'c','c',  'c', 'c'),
+    table.placement = "tbp",
+    caption.placement = "top"))
+@
+
+
+
+
+
+<<label=tab3,echo=FALSE,results=tex>>=
+library(xtable)
+cptable=genreporttable3(filelist,labellist);
+print(xtable(cptable, caption = "Summary of samples", label = "tab:three",
+    digits = c(0,0, 0),
+    align=c('c', 'p{9cm}', 'c'),
+    table.placement = "tbp",
+    caption.placement = "top"))
+@
+
+
+
+
+The meanings of the columns are as follows.
+
+\begin{itemize}
+\item \textbf{Row}: The row number in the table;
+\item \textbf{File}: The filename of fastq file;
+\item \textbf{Label}: Assigned label;
+\item \textbf{Reads}: The total read count in the fastq file;
+\item \textbf{Mapped}: Reads that can be mapped to gRNA library;
+\item \textbf{Percentage}: The percentage of mapped reads;
+\item \textbf{TotalsgRNAs}: The number of sgRNAs in the library;
+\item \textbf{ZeroCounts}: The number of sgRNA with 0 read counts;
+\item \textbf{GiniIndex}: The Gini Index of the read count distribution. Gini index can be used to measure the evenness of the read counts, and a smaller value means a more even distribution of the read counts.
+\end{itemize}
+
+
+
+\newpage\section{Normalized read count distribution of all samples}
+The following figure shows the distribution of median-normalized read counts in all samples.
+
+
+<<fig=TRUE,echo=FALSE,width=4.5,height=4.5>>=
+genboxplot("output.count_normalized.txt");
+@
+
+The following figure shows the histogram of median-normalized read counts in all samples.
+
+
+<<fig=TRUE,echo=FALSE,width=4.5,height=4.5>>=
+genhistplot("output.count_normalized.txt");
+@
+
+%__INDIVIDUAL_PAGE__
+
+
+
+\end{document}
+
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/output_summary.Rnw	Wed Apr 04 11:03:29 2018 -0400
@@ -0,0 +1,1063 @@
+% This is a template file for Sweave used in MAGeCK
+% Author: Wei Li, Shirley Liu lab
+% Do not modify lines beginning with "#__".
+\documentclass{article}
+
+\usepackage{amsmath}
+\usepackage{amscd}
+\usepackage[tableposition=top]{caption}
+\usepackage{ifthen}
+\usepackage{fullpage}
+\usepackage[utf8]{inputenc}
+
+\begin{document}
+\setkeys{Gin}{width=0.9\textwidth}
+
+\title{MAGeCK Comparison Report}
+\author{Wei Li}
+
+\maketitle
+
+
+\tableofcontents
+
+\section{Summary}
+
+%Function definition
+<<label=funcdef,include=FALSE,echo=FALSE>>=
+genreporttable<-function(comparisons,ngenes,direction,fdr1,fdr5,fdr25){
+  xtb=data.frame(Comparison=comparisons,Genes=ngenes,Selection=direction,FDR1=fdr1,FDR5=fdr5,FDR25=fdr25);
+  colnames(xtb)=c("Comparison","Genes","Selection","FDR1%","FDR5%","FDR25%");
+  return (xtb);
+}
+@
+
+The statistics of comparisons is as indicated in the following table.
+
+<<label=tab1,echo=FALSE,results=tex>>=
+library(xtable)
+comparisons=c("HL60_final,KBM7_final_vs_HL60_initial,KBM7_initial neg.","HL60_final,KBM7_final_vs_HL60_initial,KBM7_initial pos.");
+ngenes=c(100,100);
+direction=c("negative","positive");
+fdr1=c(0,0);
+fdr5=c(2,0);
+fdr25=c(9,1);
+
+cptable=genreporttable(comparisons,ngenes,direction,fdr1,fdr5,fdr25);
+print(xtable(cptable, caption = "Summary of comparisons", label = "tab:one",
+    digits = c(0, 0, 0, 0, 0, 0, 0),
+    table.placement = "tbp",
+    caption.placement = "top"))
+@
+
+The meanings of the columns are as follows.
+
+\begin{itemize}
+\item \textbf{Comparison}: The label for comparisons;
+\item \textbf{Genes}: The number of genes in the library;
+\item \textbf{Selection}: The direction of selection, either positive selection or negative selection;
+\item \textbf{FDR1\%}: The number of genes with FDR $<$ 1\%;
+\item \textbf{FDR5\%}: The number of genes with FDR $<$ 5\%;
+\item \textbf{FDR25\%}: The number of genes with FDR $<$ 25\%;
+\end{itemize}
+
+The following figures show:
+
+\begin{itemize}
+\item Individual sgRNA read counts of selected genes in selected samples;
+\item The distribution of RRA scores and p values of all genes; and
+\item The RRA scores and p values of selected genes.
+\end{itemize}
+
+
+\newpage\section{Comparison results of HL60 final,KBM7 final vs HL60 initial,KBM7 initial neg.}
+
+The following figure shows the distribution of RRA score in the comparison HL60 final,KBM7 final vs HL60 initial,KBM7 initial neg., and the RRA scores of 10 genes.
+
+<<echo=FALSE>>=
+gstable=read.table('output.gene_summary.txt',header=T)
+@
+%
+
+
+<<fig=TRUE,echo=FALSE,width=4.5,height=4.5>>=#
+#
+# parameters
+# Do not modify the variables beginning with "__"
+
+# gstablename='__GENE_SUMMARY_FILE__'
+startindex=3
+# outputfile='__OUTPUT_FILE__'
+targetgenelist=c("ACIN1","ACTR8","AHCY","ACLY","AATF","AGBL5","AHCTF1","ABT1","ADIRF","ABCF1")
+# samplelabel=sub('.\w+.\w+$','',colnames(gstable)[startindex]);
+samplelabel='HL60_final,KBM7_final_vs_HL60_initial,KBM7_initial neg.'
+
+
+# You need to write some codes in front of this code:
+# gstable=read.table(gstablename,header=T)
+# pdf(file=outputfile,width=6,height=6)
+
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+######
+# function definition
+
+plotrankedvalues<-function(val, tglist, ...){
+
+  plot(val,log='y',ylim=c(max(val),min(val)),type='l',lwd=2, ...)
+  if(length(tglist)>0){
+    for(i in 1:length(tglist)){
+      targetgene=tglist[i];
+      tx=which(names(val)==targetgene);ty=val[targetgene];
+      points(tx,ty,col=colors[(i %% length(colors)) ],cex=2,pch=20)
+      # text(tx+50,ty,targetgene,col=colors[i])
+    }
+    legend('topright',tglist,pch=20,pt.cex = 2,cex=1,col=colors)
+  }
+}
+
+
+
+plotrandvalues<-function(val,targetgenelist, ...){
+  # choose the one with the best distance distribution
+
+  mindiffvalue=0;
+  randval=val;
+  for(i in 1:20){
+    randval0=sample(val)
+    vindex=sort(which(names(randval0) %in% targetgenelist))
+    if(max(vindex)>0.9*length(val)){
+      # print('pass...')
+      next;
+    }
+    mindiffind=min(diff(vindex));
+    if (mindiffind > mindiffvalue){
+      mindiffvalue=mindiffind;
+      randval=randval0;
+      # print(paste('Diff: ',mindiffvalue))
+    }
+  }
+  plot(randval,log='y',ylim=c(max(randval),min(randval)),pch=20,col='grey', ...)
+
+  if(length(targetgenelist)>0){
+    for(i in 1:length(targetgenelist)){
+      targetgene=targetgenelist[i];
+      tx=which(names(randval)==targetgene);ty=randval[targetgene];
+      points(tx,ty,col=colors[(i %% length(colors)) ],cex=2,pch=20)
+      text(tx+50,ty,targetgene,col=colors[i])
+    }
+  }
+
+}
+
+
+
+
+# set.seed(1235)
+
+
+
+pvec=gstable[,startindex]
+names(pvec)=gstable[,'id']
+pvec=sort(pvec);
+
+plotrankedvalues(pvec,targetgenelist,xlab='Genes',ylab='RRA score',main=paste('Distribution of RRA scores in \n',samplelabel))
+
+# plotrandvalues(pvec,targetgenelist,xlab='Genes',ylab='RRA score',main=paste('Distribution of RRA scores in \n',samplelabel))
+
+
+pvec=gstable[,startindex+1]
+names(pvec)=gstable[,'id']
+pvec=sort(pvec);
+
+plotrankedvalues(pvec,targetgenelist,xlab='Genes',ylab='p value',main=paste('Distribution of p values in \n',samplelabel))
+
+# plotrandvalues(pvec,targetgenelist,xlab='Genes',ylab='p value',main=paste('Distribution of p values in \n',samplelabel))
+
+
+
+# you need to write after this code:
+# dev.off()
+
+
+
+
+@
+%%
+\clearpage
+\newpage
+The following figures show the distribution of sgRNA read counts (normalized) of selected genes in selected samples.
+%
+
+
+<<fig=TRUE,echo=FALSE,width=4.5,height=4.5>>=
+par(mfrow=c(2,2));
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(561.4907165816957,824.0396348113272,428.37415340969943,579.047491896501),c(3424.79939695118,3818.2871009576584,1992.3498917052,690.0506672205338),c(846.6456878299913,985.6508562937211,335.0024675413113,415.97581680707134),c(2432.636481525409,2122.257249136931,1067.465489792653,155.6333179800872),c(1308.1851773762019,2186.1913587343615,1482.5909580453515,997.3120339679854),c(405.68439208520414,268.16807081144486,170.34023773287015,109.85881269182627),c(640.8637498157573,559.4234589775174,711.6436598617687,632.2603542941043),c(946.5969148654764,470.6260845366416,663.0651476194316,457.74505288260946),c(246.9383256170808,177.59474888175154,28.39003962214503,0.0),c(568.8400715107754,612.7018836420428,564.0154538266146,270.64176251684285))
+targetgene="ACIN1"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(2484.0819660289676,2349.578527705573,2172.7843657481662,910.9126552363929),c(992.1629154257711,1005.1862786707138,743.8190381001997,200.26346063614164),c(1267.0287897733551,1156.1418152202027,251.09412821363824,42.34141739164138),c(1500.738276518092,1315.977089213779,800.5991173444897,1476.2277955464156),c(1925.5309914189038,2054.7712445618654,194.94493873872918,235.16652091844063),c(351.29916561001374,781.4168950797068,227.75120674654121,624.2498158686586),c(1719.74905340467,1006.9622261595313,356.45271970026533,222.0063506480656),c(903.9706562768137,1445.6212558974576,1482.5909580453515,1055.1023468944147),c(651.152846716469,1081.552020689867,576.0023594448536,1072.2677863775127),c(285.1549712482957,408.46792242802854,99.0496937928171,44.630142656054424))
+targetgene="ACTR8"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(301.3235520922712,657.1005708624807,228.38209651592223,137.32351586478285),c(1142.0897559789987,1099.311495578042,112.92926871919911,100.70391163417409),c(789.3207193831689,671.3081507730209,723.6305654800077,588.7745742702564),c(392.45555321286054,412.0198174056636,334.37157777193033,213.99581222261992),c(2009.3136376104133,2235.917888421252,2437.1271791188055,1937.9781176417478),c(1071.5359486598327,406.69197493921104,645.4002340767636,349.602784139093),c(61.7345814042702,218.44154112455442,614.4866353770946,452.5954210376801),c(651.152846716469,879.0940069646701,237.21455328725622,18.88198343140764),c(1625.6773103124485,1410.1023061211074,2146.286995434164,1986.613529510525),c(1053.8974968300413,882.6459019423052,106.6203710253891,105.85354347910344))
+targetgene="AHCY"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(1268.498660759171,1411.8782536099247,1136.2324746551822,603.6512884889412),c(327.78122983695846,454.642557137284,51.73296108924205,24.031615276336996),c(132.28838872343613,241.5288584791821,123.02350502929512,65.80085135187511),c(495.34652221997754,586.0626713097802,279.4841678357833,243.74924065998954),c(1009.8013672555626,1102.8633905556771,1237.174837756142,1004.7503910773278),c(877.5129785321263,715.7068379934587,538.1489732819936,594.496387431289),c(1594.8100196103135,1108.1912330221296,605.6541786057605,127.59643349102738),c(314.5523909646148,252.1845434120872,88.95545748272109,359.9020478289517),c(512.984974049769,269.94401830026237,205.67006481820619,126.45207085882086),c(761.3931706526657,475.9539270030942,559.5992254409475,596.7851126957021))
+targetgene="ACLY"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+par(mfrow=c(1,1));
+@
+%
+
+
+<<fig=TRUE,echo=FALSE,width=4.5,height=4.5>>=
+par(mfrow=c(2,2));
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(659.9720726313648,809.832054900787,880.7221180558769,802.1982051767731),c(724.6463960072668,1086.8798631563195,695.2405258578626,307.26136674745163),c(836.3565909292796,1289.3378768815162,468.75109865008346,177.94838930811443),c(367.46774645398926,571.85509139924,300.30353022535627,116.72498848506541),c(518.8644579930328,632.2373060190355,627.7353205340956,308.9779106957614),c(405.68439208520414,259.28833336735727,324.27734146183434,166.5047629860492),c(2096.0360257735547,1960.6460276545372,1573.4390848362154,629.9716290296913),c(277.8056163192159,435.1071347602913,182.32714335110919,0.0),c(995.1026573974029,477.7298744919117,728.0467938656747,275.21921304566894),c(2185.6981559083283,1482.9161531626255,1741.8866532609427,1862.4501839161173))
+targetgene="AATF"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(640.8637498157573,602.0461987091378,307.2433176885473,192.82510352679924),c(354.23890758164566,280.5997032331675,204.4082852794442,275.79139436177223),c(779.0316224824572,932.3724316291956,778.5179754161547,905.1908420753603),c(624.6951689717818,554.0956165110648,370.96318439602834,558.4489645167836),c(1133.270530064103,1394.1187787217498,639.0913363829536,1131.2024619361487),c(423.32284391499564,412.0198174056636,224.59675789963623,426.84726181303336),c(296.91393913482335,829.3674772777797,489.5704610396565,1233.0507362025292),c(684.959879390236,546.9918265557948,394.30610586312537,566.4595029422292),c(440.96129574478715,630.461358530218,434.6830511035094,457.1728715665062),c(1108.2827233052317,1969.5257650986248,1066.2037102538911,1333.7546478367033))
+targetgene="AGBL5"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(196.96271209933826,301.9110730989776,423.9579250240324,34.33087896619571),c(1106.8128523194157,1056.6887558464218,1743.1484327997048,807.3478370217025),c(748.1643317803222,488.3855594248168,239.73811236478022,477.77139894622366),c(1095.053884432888,882.6459019423052,837.8216137379688,365.05167967388104),c(677.6105244611563,316.11865300951774,613.8557456077136,819.3636446598709),c(1078.8853035889126,1609.008424868669,348.88204246769334,193.96946615900578),c(1437.533824128006,1095.759600600407,320.4920028455483,161.35513114111984),c(845.1758168441753,660.6524658401157,541.3034221288985,640.8430740356532),c(551.2016196809839,740.570102836904,1103.42620664737,622.5332719203489),c(601.1772331987264,900.4053768304803,735.6174710982467,754.1349746240991))
+targetgene="AHCTF1"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(487.9971672908978,367.6211301852257,312.2904358435953,441.15179471561487),c(358.6485205390935,394.2603425174884,593.0363832181406,268.35303725242983),c(1743.266989177725,1980.1814500315297,837.1907239685878,281.5132075228048),c(1597.7497615819454,1465.1566782744503,1065.57282048451,992.7345834391593),c(119.05954985109253,378.2768151181308,185.48159219801417,128.7407961232339),c(986.2834314825072,745.8979453033566,328.0626800781203,302.11173490252224),c(523.2740709504807,694.3954681276485,336.89513684945433,597.9294753279087),c(1562.4728579223624,763.6574201915316,422.0652557158894,220.28980669975581),c(30.8672907021351,179.37069637056908,238.47633282601822,184.81456510135357),c(339.5401977234861,447.5387671820139,310.3977665354523,205.98527379717427))
+targetgene="ABT1"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+par(mfrow=c(1,1));
+@
+%
+
+
+<<fig=TRUE,echo=FALSE,width=4.5,height=4.5>>=
+par(mfrow=c(2,2));
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(492.4067802483456,221.99343610218943,309.7668767660713,102.99263689858714),c(243.9985836454489,239.7529109903646,130.59418226186713,174.51530141149487),c(734.9354929079785,673.0840982618383,620.7955330709046,470.9052231529845),c(1074.4756906314647,950.1319065173708,1100.902647569846,743.8357109342404),c(702.5983312200275,1010.5141211371663,1291.4313579229083,1017.3383800315995),c(1647.7253750996879,760.1055252138966,685.7771793171477,608.2287390177673),c(951.0065278229242,864.8864270541301,606.9159581445226,769.0116888427839),c(435.0818118015233,435.1071347602913,275.69882921949727,339.8757017653375),c(89.66213013477338,209.56180368046682,208.8245136651112,304.4004601669353),c(1328.7633711776252,1571.7135276035012,1122.983789498181,1356.6419004808338))
+targetgene="ADIRF"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(216.0710349149457,289.479440677255,192.42137966120518,498.36992632594104),c(1127.391046120839,1198.764554951823,371.5940741654094,370.2013115188104),c(1111.2224652768637,1038.9292809582466,948.227323379644,922.3562815584581),c(1164.137820766238,1204.0923974182756,1686.9992433247955,2089.033985093009),c(48.505742531926586,248.63264843445216,665.5887066969557,248.8988725049189),c(501.2260061632414,387.1565525622184,436.5757204116524,314.69972385679404),c(1975.5066049366465,1797.2588586833258,1628.3264947723626,1289.6966864967521),c(213.13129294331378,376.5008676293133,404.4003421732214,482.921030791153),c(2012.2533795820452,1989.0611874756173,1064.3110409457481,431.9968936579627),c(264.57677744687226,353.4135502746856,442.25372833608145,191.6807408945927))
+targetgene="ABCF1"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+par(mfrow=c(1,1));
+@
+
+\newpage\section{Comparison results of HL60 final,KBM7 final vs HL60 initial,KBM7 initial pos.}
+
+The following figure shows the distribution of RRA score in the comparison HL60 final,KBM7 final vs HL60 initial,KBM7 initial pos., and the RRA scores of 10 genes.
+
+<<echo=FALSE>>=
+gstable=read.table('output.gene_summary.txt',header=T)
+@
+%
+
+
+<<fig=TRUE,echo=FALSE,width=4.5,height=4.5>>=#
+#
+# parameters
+# Do not modify the variables beginning with "__"
+
+# gstablename='__GENE_SUMMARY_FILE__'
+startindex=9
+# outputfile='__OUTPUT_FILE__'
+targetgenelist=c("ACRC","AGAP3","ADCK4","AHRR","ADRBK1","ADK","ADCK1","ADARB2","ACSS2","ADNP")
+# samplelabel=sub('.\w+.\w+$','',colnames(gstable)[startindex]);
+samplelabel='HL60_final,KBM7_final_vs_HL60_initial,KBM7_initial pos.'
+
+
+# You need to write some codes in front of this code:
+# gstable=read.table(gstablename,header=T)
+# pdf(file=outputfile,width=6,height=6)
+
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+######
+# function definition
+
+plotrankedvalues<-function(val, tglist, ...){
+
+  plot(val,log='y',ylim=c(max(val),min(val)),type='l',lwd=2, ...)
+  if(length(tglist)>0){
+    for(i in 1:length(tglist)){
+      targetgene=tglist[i];
+      tx=which(names(val)==targetgene);ty=val[targetgene];
+      points(tx,ty,col=colors[(i %% length(colors)) ],cex=2,pch=20)
+      # text(tx+50,ty,targetgene,col=colors[i])
+    }
+    legend('topright',tglist,pch=20,pt.cex = 2,cex=1,col=colors)
+  }
+}
+
+
+
+plotrandvalues<-function(val,targetgenelist, ...){
+  # choose the one with the best distance distribution
+
+  mindiffvalue=0;
+  randval=val;
+  for(i in 1:20){
+    randval0=sample(val)
+    vindex=sort(which(names(randval0) %in% targetgenelist))
+    if(max(vindex)>0.9*length(val)){
+      # print('pass...')
+      next;
+    }
+    mindiffind=min(diff(vindex));
+    if (mindiffind > mindiffvalue){
+      mindiffvalue=mindiffind;
+      randval=randval0;
+      # print(paste('Diff: ',mindiffvalue))
+    }
+  }
+  plot(randval,log='y',ylim=c(max(randval),min(randval)),pch=20,col='grey', ...)
+
+  if(length(targetgenelist)>0){
+    for(i in 1:length(targetgenelist)){
+      targetgene=targetgenelist[i];
+      tx=which(names(randval)==targetgene);ty=randval[targetgene];
+      points(tx,ty,col=colors[(i %% length(colors)) ],cex=2,pch=20)
+      text(tx+50,ty,targetgene,col=colors[i])
+    }
+  }
+
+}
+
+
+
+
+# set.seed(1235)
+
+
+
+pvec=gstable[,startindex]
+names(pvec)=gstable[,'id']
+pvec=sort(pvec);
+
+plotrankedvalues(pvec,targetgenelist,xlab='Genes',ylab='RRA score',main=paste('Distribution of RRA scores in \n',samplelabel))
+
+# plotrandvalues(pvec,targetgenelist,xlab='Genes',ylab='RRA score',main=paste('Distribution of RRA scores in \n',samplelabel))
+
+
+pvec=gstable[,startindex+1]
+names(pvec)=gstable[,'id']
+pvec=sort(pvec);
+
+plotrankedvalues(pvec,targetgenelist,xlab='Genes',ylab='p value',main=paste('Distribution of p values in \n',samplelabel))
+
+# plotrandvalues(pvec,targetgenelist,xlab='Genes',ylab='p value',main=paste('Distribution of p values in \n',samplelabel))
+
+
+
+# you need to write after this code:
+# dev.off()
+
+
+
+
+@
+%%
+\clearpage
+\newpage
+The following figures show the distribution of sgRNA read counts (normalized) of selected genes in selected samples.
+%
+
+
+<<fig=TRUE,echo=FALSE,width=4.5,height=4.5>>=
+par(mfrow=c(2,2));
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(461.5394895462105,502.5931393353569,445.40817718298644,889.1697652244688),c(76.43329126242978,90.5733219296933,447.30084649112945,357.0411412484354),c(258.6972935036084,685.515730683561,533.7327448963265,560.7376897811967),c(232.23961575892122,681.9638357059259,275.69882921949727,467.47213525636494),c(1393.4376945535273,1472.2604682297203,1039.706339939889,532.7008052921368),c(2395.88970688001,2441.927797124084,2462.9936596634266,2461.5240218762324),c(495.34652221997754,605.5980936867728,1159.575396122279,1617.5565806239213),c(682.0201374186041,822.2636873225097,1572.1773052974536,1333.7546478367033),c(961.2956247236359,1097.5355480892247,959.5833392285019,905.1908420753603),c(1940.2297012770634,1289.3378768815162,942.5493154552149,1103.737758763192))
+targetgene="ACRC"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(1387.5582106102636,1120.6228654438523,1214.4628060584262,1111.1761158725344),c(388.0459402554127,509.69692929062694,933.0859689144999,750.1297054113762),c(326.3113588511425,635.7892009966705,960.8451187672639,615.6670961271097),c(1328.7633711776252,1038.9292809582466,1346.3187678590552,1596.3858719281006),c(352.7690365958297,234.42506852391205,310.3977665354523,429.1359870774464),c(693.7791053051318,678.4119407282909,784.1959833405838,895.4637597016048),c(837.8264619150956,719.2587329710938,374.74852301231437,993.8789460713658),c(365.99787546817333,369.3970776740432,333.74068800254935,746.6966175147567),c(707.0079441774753,635.7892009966705,837.1907239685878,1465.3563505404536),c(486.5272963050818,673.0840982618383,784.8268731099647,734.6808098765882))
+targetgene="AGAP3"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(830.4771069860158,864.8864270541301,1349.4732167059603,740.974804353724),c(1481.6299537024847,1994.38902994207,2044.082852794442,1810.9538654668238),c(1234.6916280854039,1299.9935618144214,1357.6747837079133,2232.6514954349277),c(224.89026082984142,188.25043381465665,700.2876440129107,81.24974688666317),c(812.8386551562243,845.3510046771374,946.334654071501,999.6007592323984),c(1978.4463469082782,1751.0842239740703,2659.2003779409174,2851.1794981425537),c(565.9003295391435,776.0890526132542,878.1985589783528,445.72924524444096),c(680.5502664327881,534.5601941340722,550.7667686696135,1025.9210997731484),c(161.68580843975528,333.87812789769293,275.0679394501163,465.18340999195186),c(2523.768482645998,2445.4796921017187,2153.226782897355,1516.8526689897471))
+targetgene="ADCK4"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(345.4196816667499,163.38716897121142,474.42910657451245,481.2044868428432),c(415.9734889859159,372.9489726516783,212.6098522813972,349.03060282298975),c(1.469870985815957,83.46953197442323,0.0,62.9399447713588),c(351.29916561001374,150.9555365494888,288.9475143764983,416.54799812317464),c(561.4907165816957,170.49095892648148,199.3611671243962,411.97054759434855),c(251.34793857452865,221.99343610218943,1564.6066280648815,1502.5481360871656),c(736.4053638937945,893.3015868752103,1114.782222496228,459.46159683091923),c(338.07032673767014,607.3740411755903,378.5338616286004,65.22867003577186),c(1230.2820151279561,525.6804566899846,837.1907239685878,945.2435342025885))
+targetgene="AHRR"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+par(mfrow=c(1,1));
+@
+%
+
+
+<<fig=TRUE,echo=FALSE,width=4.5,height=4.5>>=
+par(mfrow=c(2,2));
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(371.87735941143717,877.3180594758527,2395.4884543396593,1564.9158995424211),c(1109.7525942910477,1138.3823403320275,970.308465307979,999.0285779162951),c(1462.5216308868773,1209.420239884728,1537.4783679814984,1519.14139425416),c(586.4785233405669,987.4268037825386,743.8190381001997,1312.0117578247794),c(1018.6205931704583,717.4827854822763,1070.619938639558,1144.3626322065236),c(1269.9685317449869,1212.9721348623632,1591.1039983788835,1624.9949377332637),c(1321.4140162485455,1795.4829111945082,1478.8056194290655,1237.056005415252),c(908.3802692342615,832.9193722554148,1639.6825106212207,1268.5259778009315),c(923.078979092421,758.3295777250792,1479.4365091984464,1275.964334910274),c(680.5502664327881,634.013253507853,318.5993335374053,631.1159916618979))
+targetgene="ADRBK1"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(1472.810727787589,1829.225913482041,1263.0413183007631,1315.444845721399),c(208.7216799858659,65.71005708624807,292.1019632234033,350.17496545519623),c(1011.2712382413785,1166.7975001531076,652.9709113093356,860.5606994193058),c(557.0811036242477,685.515730683561,875.0441101314478,1019.6271052960126),c(363.0581334965414,825.8155823001447,736.8792506370087,349.602784139093),c(1505.14788947554,451.09066215964896,653.6018010787167,991.0180394908496),c(198.43258308515422,28.41515982108025,249.83234867487624,114.43626322065236),c(438.02155377315523,74.58979453033565,254.87946682992424,231.16125170571777),c(804.0194292413286,472.4020320254591,1336.2245315489592,1203.2973077651598),c(454.19013461713075,490.1615069136343,896.4943622904019,685.4732166917076))
+targetgene="ADK"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(662.9118146029966,1008.7381736483488,1101.533537339227,1694.8010582978616),c(1547.7741480642028,1965.9738701209897,1869.9572764452857,2353.9539344488194),c(1459.5818889152454,1179.2291325748304,1296.4784760779562,1222.1792911965672),c(1193.5352404825571,1355.0479339677643,1622.0175970785526,1905.9359639399652),c(868.6937526172306,701.4992580829187,720.4761166331027,603.6512884889412),c(798.1399452980647,768.9852626579842,1478.8056194290655,1756.0244591209105),c(1168.5474337236858,907.5091667857504,879.4603385171149,977.8578692204745),c(809.8989131845924,687.2916781723785,678.8373918539567,865.7103312642352),c(1246.4505959719315,753.0017352586266,1301.5255942330043,1264.5207085882087),c(826.0674940285679,797.4004224790644,977.8791425405509,2066.7189137649816))
+targetgene="ADCK1"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(1863.7964100146337,1585.9211075140413,1761.4442361117538,1464.211987908247),c(742.2848478370584,598.4943037315028,943.8110949939769,820.5080072920774),c(1568.3523418656262,2083.1864043829455,1810.6536381234716,1887.6261618246608),c(1018.6205931704583,513.248824268262,679.4682816233377,824.5132765048003),c(1140.6198849931827,1191.6607649965529,880.0912282864958,977.8578692204745),c(135.22813069506805,118.98848175077354,351.40560154521734,399.95473995618005),c(665.8515565746286,701.4992580829187,986.7115993118849,746.6966175147567),c(418.9132309575478,300.1351256101601,376.6411923204574,645.4205245644794),c(561.4907165816957,543.4399315781598,881.9838975946388,580.7640358448108),c(442.4311667306031,229.0972260574595,395.5678854018874,651.142337725512))
+targetgene="ADARB2"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+par(mfrow=c(1,1));
+@
+%
+
+
+<<fig=TRUE,echo=FALSE,width=4.5,height=4.5>>=
+par(mfrow=c(2,2));
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(734.9354929079785,358.74139274113816,541.9343118982795,378.7840312603593),c(595.2977492554626,591.3905137762326,1061.787481868224,887.4532212761591),c(1655.0747300287676,943.0281165621008,1069.358159100796,2038.1098479598186),c(626.1650399575977,884.4218494311227,517.3296108924205,858.2719741548927),c(680.5502664327881,747.673892792174,533.1018551269456,1016.194017399393),c(662.9118146029966,777.8650001020718,864.9498738213518,787.3214909580882),c(880.4527205037583,621.5816210861304,671.8976043907657,1040.7978139918332),c(94.07174309222125,447.5387671820139,711.6436598617687,927.5059134033875),c(399.80490814194036,806.280159923152,1147.58849050404,1059.1076161071376),c(698.1887182625796,531.0082991564371,504.0809257354195,347.8862401907832))
+targetgene="ACSS2"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+# parameters
+# Do not modify the variables beginning with "__"
+targetmat=list(c(408.62413405683606,523.9045092011671,483.89245311522745,701.494293542599),c(1805.0015705819953,1434.9655709645526,1712.2348341000356,2152.546111180471),c(3017.64513388016,2642.609863360463,1834.6274493599499,3573.2723190648703),c(1649.1952460855039,783.1928425685244,773.4708572611067,1332.0381038883936),c(959.82575373782,1397.6706736993847,1429.5962174173474,2811.126806015325),c(495.34652221997754,301.9110730989776,336.89513684945433,555.015876620164),c(1491.9190506031964,1331.9606166131366,2087.614246881731,1983.1804416139055),c(429.2023278582595,889.7496918975753,567.8007924429005,1132.9190058844583),c(427.7324568724435,573.6310388880576,655.4944703868597,899.4690289143276),c(690.8393633334998,767.2093151691668,1040.33722970927,993.3067647552625))
+targetgene="ADNP"
+collabel=c("HL60_initial","KBM7_initial","HL60_final","KBM7_final")
+
+# set up color using RColorBrewer
+#library(RColorBrewer)
+#colors <- brewer.pal(length(targetgenelist), "Set1")
+
+colors=c( "#E41A1C", "#377EB8", "#4DAF4A", "#984EA3", "#FF7F00",  "#A65628", "#F781BF",
+          "#999999", "#66C2A5", "#FC8D62", "#8DA0CB", "#E78AC3", "#A6D854", "#FFD92F", "#E5C494", "#B3B3B3",
+          "#8DD3C7", "#FFFFB3", "#BEBADA", "#FB8072", "#80B1D3", "#FDB462", "#B3DE69", "#FCCDE5",
+          "#D9D9D9", "#BC80BD", "#CCEBC5", "#FFED6F")
+
+
+## code
+
+targetmatvec=unlist(targetmat)+1
+yrange=range(targetmatvec[targetmatvec>0]);
+# yrange[1]=1; # set the minimum value to 1
+for(i in 1:length(targetmat)){
+  vali=targetmat[[i]]+1;
+  if(i==1){
+    plot(1:length(vali),vali,type='b',las=1,pch=20,main=paste('sgRNAs in',targetgene),ylab='Read counts',xlab='Samples',xlim=c(0.7,length(vali)+0.3),ylim = yrange,col=colors[(i %% length(colors))],xaxt='n',log='y')
+    axis(1,at=1:length(vali),labels=(collabel),las=2)
+    # lines(0:100,rep(1,101),col='black');
+  }else{
+    lines(1:length(vali),vali,type='b',pch=20,col=colors[(i %% length(colors))])
+  }
+}
+
+
+
+par(mfrow=c(1,1));
+@
+%__INDIVIDUAL_PAGE__
+
+
+
+
+
+
+
+
+
+\end{document}
+
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