Mercurial > repos > yqiancolumbia > ctk_test
comparison tag2cluster.xml @ 0:0475e4175855 draft default tip
planemo upload commit 81ece2551cea27cbd0e718ef5b7a2fe8d4abd071-dirty
author | yqiancolumbia |
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date | Mon, 30 Apr 2018 05:25:11 -0400 |
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1 <tool id="tag2cluster" name="Cluster genomic regions"> | |
2 <command interpreter="perl"> | |
3 /home/galaxy/tools/CTK/tag2cluster.pl -v $bigFile $strand -maxGap $MaxGap $input $output | |
4 </command> | |
5 <inputs> | |
6 <param type="data" format="bed" name="input" label="Input BED file of unique CLIP tags (.gz file accepted)"/> | |
7 | |
8 <param name="bigFile" type="boolean" truevalue="-big" falsevalue="" checked="no" label="This is a big file (over 6M lines)" /> | |
9 <param name="strand" type="boolean" truevalue="-s" falsevalue="" checked="yes" label="Same strand required" /> | |
10 <param name="MaxGap" type="integer" value="-1" label="The max gap to be considered as an overlap" /> | |
11 | |
12 </inputs> | |
13 <outputs> | |
14 <data name="output" format="bed" /> | |
15 </outputs> | |
16 <help> | |
17 .. class:: infomark | |
18 | |
19 **What it does** | |
20 | |
21 This tool will cluster overlapping tags or nearby regions into clusters and report tag count in each cluster. | |
22 It will take as input files in BED format of unique CLIP tags and output files in BED format of clustered overlapping CLIP tags. | |
23 | |
24 </help> | |
25 | |
26 </tool> |