Repository 'hicexplorer_hiccorrectmatrix'
hg clone https://toolshed.g2.bx.psu.edu/repos/bgruening/hicexplorer_hiccorrectmatrix

Changeset 6:3889ecd44f20 (2018-01-02)
Previous changeset 5:44919af9194b (2017-12-30) Next changeset 7:1612e9458940 (2018-01-03)
Commit message:
planemo upload for repository https://github.com/maxplanck-ie/HiCExplorer/tree/master/galaxy/wrapper/ commit 8def073a083b0619e366436a067a614555190058
modified:
macros.xml
added:
test-data/raw_qc_report
b
diff -r 44919af9194b -r 3889ecd44f20 macros.xml
--- a/macros.xml Sat Dec 30 09:24:06 2017 -0500
+++ b/macros.xml Tue Jan 02 10:17:05 2018 -0500
b
@@ -11,7 +11,7 @@
 
     <xml name="citations">
         <citations>
-            <citation type="doi">10.5281/zenodo.1123667</citation>
+            <citation type="doi">10.5281/zenodo.1133705</citation>
             <yield />
         </citations>
     </xml>
b
diff -r 44919af9194b -r 3889ecd44f20 test-data/raw_qc_report
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/raw_qc_report Tue Jan 02 10:17:05 2018 -0500
b
@@ -0,0 +1,29 @@
+
+File text_matrix.h5
+Pairs considered 983
+Min rest. site distance 300
+Max library insert size 1000
+
+# count (percentage w.r.t. total sequenced reads)
+Pairs mappable, unique and high quality 300 (30.52)
+Pairs used 215 (21.87)
+One mate unmapped 506 (51.48)
+One mate not unique 13 (1.32)
+One mate low quality 164 (16.68)
+
+# count (percentage w.r.t. mappable, unique and high quality pairs)
+dangling end 0 (0.00)
+self ligation (removed) 0 (0.00)
+One mate not close to rest site 0 (0.00)
+same fragment 85 (28.33)
+self circle 0 (0.00)
+duplicated pairs 0 (0.00)
+
+# count (percentage w.r.t. total valid pairs used)
+inter chromosomal 24 (11.16)
+short range < 20kb 61 (28.37)
+long range 130 (60.47)
+inward pairs 42 (19.53)
+outward pairs 66 (30.70)
+left pairs 48 (22.33)
+right pairs 35 (16.28)