Mercurial > repos > mvdbeek > damidseq_findpeaks

comparison damidseq_findpeaks.xml @ 4:5a56b400df93 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/damidseq_findpeaks commit 11875bd02ef0c27b5efa25ba5e256c530117e80a-dirty
author mvdbeek
date Fri, 20 Apr 2018 05:07:19 -0400
parents 61d383c9047a
children 29f82a5c7966
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3:61d383c9047a 4:5a56b400df93
11 --min_count=$min_count 11 --min_count=$min_count
12 --min_quant=$min_quant 12 --min_quant=$min_quant
13 --n=$n 13 --n=$n
14 --step=$step 14 --step=$step
15 --unified_peaks=$unified_peaks 15 --unified_peaks=$unified_peaks
16 '$input_file' | LC_ALL=C sed -e 's/[^A-Za-z0-9._-]/ /g' && 16 '$input_file' | LC_ALL=C sed -e 's/[^A-Za-z0-9._-]/ /g' 2>&1 > log.txt&&
17 mv peak_analysis*/*.gff peaks.gff && 17 mv peak_analysis*/*.gff peaks.gff &&
18 mv peak_analysis*/*data log.txt 18 cat peak_analysis*/*data >> log.txt
19 ]]></command> 19 ]]></command>
20 <inputs> 20 <inputs>
21 <param name="input_file" type="data" format="gff,bed,bedgraph" label="Select dam-fusion/dam ratio files" help="You can use damidseq_core to produce this file."/> 21 <param name="input_file" type="data" format="gff,bed,bedgraph" label="Select dam-fusion/dam ratio files" help="You can use damidseq_core to produce this file."/>
22 <param argument="--fdr" type="float" min="0" max="1" value="0.01" label="Set the False Discovery Rate (FDR)"/> 22 <param argument="--fdr" type="float" min="0" max="1" value="0.01" label="Set the False Discovery Rate (FDR)"/>
23 <param argument="--frac" type="float" min="0" max="1" value="0.01" label="Number of random fragments to consider per iteration"/> 23 <param argument="--frac" type="float" min="0" max="1" value="0.01" label="Number of random fragments to consider per iteration"/>