annotate test-data/test_MACS2.1.2_peaks.xls.re_match @ 4:11cf21ee4242 draft

Uploaded tool version 2.1.2.0.
author pjbriggs
date Wed, 12 Dec 2018 08:26:16 -0500
parents
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
4
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
1 \#peaks\ file
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
2 \#\ This\ file\ is\ generated\ by\ MACS\ version\ 2\.1\.2
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
3 \#\ Command\ line\:\ callpeak\ \-t\ .*\.dat \-c\ .*\.dat\ \-\-format\=BED\ \-\-name\=test\_MACS2\.1\.2\ \-\-bw\=300\ \-\-gsize\=775000000\.0\ \-\-nomodel\ \-\-extsize\=243\ \-\-qvalue\=0\.05\ \-B\ \-\-SPMR\ \-\-mfold\ 5\ 50\ \-\-keep\-dup\ 1
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
4 \#\ ARGUMENTS\ LIST\:
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
5 \#\ name\ \=\ test\_MACS2\.1\.2
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
6 \#\ format\ \=\ BED
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
7 \#\ ChIP\-seq\ file\ \=\ \[\'.*\'\]
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
8 \#\ control\ file\ \=\ \[\'.*\'\]
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
9 \#\ effective\ genome\ size\ \=\ 7\.75e\+08
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
10 \#\ band\ width\ \=\ 300
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
11 \#\ model\ fold\ \=\ \[5\,\ 50\]
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
12 \#\ qvalue\ cutoff\ \=\ 5\.00e\-02
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
13 \#\ The\ maximum\ gap\ between\ significant\ sites\ is\ assigned\ as\ the\ read\ length\/tag\ size\.
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
14 \#\ The\ minimum\ length\ of\ peaks\ is\ assigned\ as\ the\ predicted\ fragment\ length\ \"d\"\.
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
15 \#\ Larger\ dataset\ will\ be\ scaled\ towards\ smaller\ dataset\.
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
16 \#\ Range\ for\ calculating\ regional\ lambda\ is\:\ 1000\ bps\ and\ 10000\ bps
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
17 \#\ Broad\ region\ calling\ is\ off
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
18 \#\ Paired\-End\ mode\ is\ off
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
19 \#\ MACS\ will\ save\ fragment\ pileup\ signal\ per\ million\ reads
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
20
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
21 \#\ tag\ size\ is\ determined\ as\ 50\ bps
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
22 \#\ total\ tags\ in\ treatment\:\ 50
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
23 \#\ tags\ after\ filtering\ in\ treatment\:\ 50
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
24 \#\ maximum\ duplicate\ tags\ at\ the\ same\ position\ in\ treatment\ \=\ 1
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
25 \#\ Redundant\ rate\ in\ treatment\:\ 0\.00
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
26 \#\ total\ tags\ in\ control\:\ 50
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
27 \#\ tags\ after\ filtering\ in\ control\:\ 50
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
28 \#\ maximum\ duplicate\ tags\ at\ the\ same\ position\ in\ control\ \=\ 1
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
29 \#\ Redundant\ rate\ in\ control\:\ 0\.00
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
30 \#\ d\ \=\ 243
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
31 \#chr\ start\ end\ length\ abs\_summit\ pileup\ \-log10\(pvalue\)\ fold\_enrichment\ \-log10\(qvalue\)\ name
11cf21ee4242 Uploaded tool version 2.1.2.0.
pjbriggs
parents:
diff changeset
32 chr26\ 4118914\ 4119282\ 369\ 4119130\ 9\.00\ 9\.13132\ 6\.31632\ 2\.51561\ test\_MACS2\.1\.2\_peak\_2