| Previous changeset 1:aca5f8ee65e4 (2016-08-06) Next changeset 3:066299035353 (2016-08-06) |
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Commit message:
initial CNV-Sim tool definition (0.9.0) |
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added:
cnv_sim.xml |
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| diff -r aca5f8ee65e4 -r 8216e150d1aa cnv_sim.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/cnv_sim.xml Sat Aug 06 15:19:57 2016 -0400 |
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| @@ -0,0 +1,31 @@ +<tool id="cnv_sim" name="Simulate CNV" version="0.9.0"> + <description>in NGS short reads </description> + <command interpreter="python" detect_errors="exit_code"> + #if $type.simulation_type=="whole_genome" + cnv-sim.py genome $reference + #else + cnv-sim.py exome $reference $target + #end if + </command> + <inputs> + <conditional name="type"> + <param name="simulation_type" type="select" label="Simulation Type"> + <option value="whole_genome">CNV Simulation in Whole Genome</option> + <option value="whole_exome">CNV Simulation in Exome Regions</option> + </param> + <when value="whole_genome"> + <param format="fasta" name="reference" type="data" label="Reference Genome"/> + </when> + <when value="whole_exome"> + <param format="fasta" name="reference" type="data" label="Reference Genome"/> + <param format="bed" name="target" type="data" label="Target Regions"/> + </when> + </conditional> + </inputs> + <outputs> + <data format="bed" name="cnv_list" from_work_dir="test/CNVList.bed"/> + </outputs> + <help> + This tool generates artificial NGS short reads in FASTQ format afficted by Copy Number Variations. + </help> +</tool> \ No newline at end of file |