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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/damidseq_findpeaks commit 5bf4f4dbd82988d1612d951d69125bc5f5b439be |
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modified:
damidseq_findpeaks.xml |
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removed:
log |
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| diff -r 7efacf19bedc -r 8fd3191302d0 damidseq_findpeaks.xml --- a/damidseq_findpeaks.xml Fri Apr 20 06:14:28 2018 -0400 +++ b/damidseq_findpeaks.xml Wed Jun 13 12:41:00 2018 -0400 |
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| @@ -20,7 +20,7 @@ <inputs> <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."/> <param argument="--fdr" type="float" min="0" max="1" value="0.01" label="Set the False Discovery Rate (FDR)"/> - <param argument="--frac" type="float" min="0" max="1" value="0.01" label="Number of random fragments to consider per iteration"/> + <param argument="--frac" type="float" min="0" max="1" value="0" label="Number of random fragments to consider per iteration"/> <param argument="--min_count" type="integer" min="1" value="2" label="Minimum number of fragments to consider as a peak"/> <param argument="--min_quant" type="float" min="0" max="1" value="0.95" label="Minimum quantile for considering peaks"/> <param argument="--n" type="integer" min="1" value="100" label="Number of iterations"/> |
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| diff -r 7efacf19bedc -r 8fd3191302d0 log --- a/log Fri Apr 20 06:14:28 2018 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
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| @@ -1,20 +0,0 @@ -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] - |