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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/damidseq_findpeaks commit 11875bd02ef0c27b5efa25ba5e256c530117e80a-dirty |
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modified:
damidseq_findpeaks.xml |
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added:
log |
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| diff -r 5a56b400df93 -r 29f82a5c7966 damidseq_findpeaks.xml --- a/damidseq_findpeaks.xml Fri Apr 20 05:07:19 2018 -0400 +++ b/damidseq_findpeaks.xml Fri Apr 20 05:11:06 2018 -0400 |
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| @@ -13,7 +13,7 @@ --n=$n --step=$step --unified_peaks=$unified_peaks - '$input_file' | LC_ALL=C sed -e 's/[^A-Za-z0-9._-]/ /g' 2>&1 > log.txt&& + '$input_file' | LC_ALL=C sed -e 's/[^A-Za-z0-9._-]/ /g' 2>&1 | > log.txt && mv peak_analysis*/*.gff peaks.gff && cat peak_analysis*/*data >> log.txt ]]></command> |
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| diff -r 5a56b400df93 -r 29f82a5c7966 log --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/log Fri Apr 20 05:11:06 2018 -0400 |
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| @@ -0,0 +1,20 @@ +Simple FDR random permutation peak caller +Usage: [options] [files in bedgraph or GFF format] + +Options: + --fdr False discovery rate value + [Current value: 0.01] + --frac Number of random fragments to consider per iteration + --min_count Minimum number of fragments to consider as a peak + [Current value: 2] + --min_quant Minimum quantile for considering peaks + [Current value: 0.95] + --n Number of iterations + [Current value: 100] + --step Stepping for quantiles + [Current value: 0.01] + --unified_peaks Method for calling peak overlaps (two options): + 'min': call minimum overlapping peak area + 'max': call maximum overlap as peak + [Current value: max] + |