Mercurial > repos > mvdbeek > damid_deseq2_to_bedgraph

comparison damid_interpolate.xml @ 0:8e4ebcd58df3 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/damid_deseq2_to_bedgraph commit 98722d2ca8205595f032361072aaab450e5f4f83
author mvdbeek
date Fri, 14 Dec 2018 06:24:38 -0500
parents
children 35011939bc8b
comparison
equal deleted inserted replaced
-1:000000000000 0:8e4ebcd58df3
1 <tool id="damid_interpolate" name="Interpolate GATC signal" version="0.1.0">
2 <description>from DESeq2 processed DamID data</description>
3 <requirements>
4 <requirement type="package" version="2.4.1">traces</requirement>
5 <requirement type="package" version="7">click</requirement>
6 <requirement type="package" version="0.23.4">pandas</requirement>
7 </requirements>
8 <command detect_errors="exit_code"><![CDATA[
9 python '$__tool_directory__/damid_to_bedgraph.py' '$input' '$output' --resolution $resolution
10 ]]></command>
11 <inputs>
12 <param name="input" type="data" format="tabular" label="Select DESeq2 result file for GATC sites"/>
13 <param argument="--resolution" type="integer" value="50" label="Select resolution for intervals"/>
14 </inputs>
15 <outputs>
16 <data name="output" format="bedgraph"/>
17 </outputs>
18 <tests>
19 <test>
20 <param name="input" value="test_data.tab"/>
21 <output name="output" value="line_count_50.tab"/>
22 </test>
23 <test>
24 <param name="input" value="test_data.tab"/>
25 <param name="resolution" value="100"/>
26 <output name="output" value="line_count_100.tab"/>
27 </test>
28 </tests>
29 <help><![CDATA[
30 Takes a deseq2 output file and generate a bedgraph file, where the score column
31 is the log2 fold change value interpolated for intervals of the size selected in
32 "Select resolution for intervals".
33 ]]></help>
34 </tool>