Mercurial > repos > mingchen0919 > aurora_htseq

annotate htseq_count.sh @ 3:1545e24c9ba7 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
add r-dt
author mingchen0919
date Wed, 07 Mar 2018 01:10:13 -0500
parents db9da9716914
children 0fdb0d5f53ce
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
2
db9da9716914 add r-dt
mingchen0919
parents: 1
diff changeset
1 Rscript '${__tool_directory__}/htseq_count_render.R'
1
mingchen0919
parents:
diff changeset
2
mingchen0919
parents:
diff changeset
3 -e $echo
mingchen0919
parents:
diff changeset
4 -o $report
mingchen0919
parents:
diff changeset
5 -d $report.files_path
mingchen0919
parents:
diff changeset
6 -s $sink_message
mingchen0919
parents:
diff changeset
7 -t '${__tool_directory__}'
mingchen0919
parents:
diff changeset
8
2
db9da9716914 add r-dt
mingchen0919
parents: 1
diff changeset
9 -A '$alignment_files'
db9da9716914 add r-dt
mingchen0919
parents: 1
diff changeset
10 -B '$sample_names'
db9da9716914 add r-dt
mingchen0919
parents: 1
diff changeset
11 -G $gff
1
mingchen0919
parents:
diff changeset
12 -f $format
mingchen0919
parents:
diff changeset
13 -r $order
mingchen0919
parents:
diff changeset
14 -S $stranded
mingchen0919
parents:
diff changeset
15 -a $minaqual
mingchen0919
parents:
diff changeset
16 -T $feature_type
mingchen0919
parents:
diff changeset
17 -i $idattr
2
db9da9716914 add r-dt
mingchen0919
parents: 1
diff changeset
18 -m $mode
db9da9716914 add r-dt
mingchen0919
parents: 1
diff changeset
19 -c $count