Mercurial > repos > geert-vandeweyer > dc_genotyper

comparison DC_Genotyper.xml @ 18:93f4d7524823 draft

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author geert-vandeweyer
date Mon, 29 Sep 2014 04:00:18 -0400
parents 36cc147395ad
children 8938f339ed37
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17:3ba482a2dd0e 18:93f4d7524823
22 #end if 22 #end if
23 -m $mincov 23 -m $mincov
24 -P $ploidy 24 -P $ploidy
25 25
26 -a $output1 26 -a $output1
27 -v $output2 27 -v $output2
28 -d $output3
28 </command> 29 </command>
29 30
30 <inputs> 31 <inputs>
31 <param name="bamfile" type="data" format="bam" label="Sample BAM file" /> 32 <param name="bamfile" type="data" format="bam" label="Sample BAM file" />
32 <param name="targets" type="data" format="bed" label="Enrichment BED file" /> 33 <param name="targets" type="data" format="bed" label="Enrichment BED file" />
56 <param name="mincov" value="400" type="integer" label="Minimal Coverage Depth" /> 57 <param name="mincov" value="400" type="integer" label="Minimal Coverage Depth" />
57 <param name="ploidy" type="integer" value='10' label="Expected Sample Ploidy" /> 58 <param name="ploidy" type="integer" value='10' label="Expected Sample Ploidy" />
58 </inputs> 59 </inputs>
59 60
60 <outputs> 61 <outputs>
61 <data format='txt' name="output1" label="${tool.name} on ${on_string}: Allele Fraction Distributions"/> 62 <data format='txt' name="output1" label="${tool.name} on ${on_string}: Allele Fraction Distributions (TXT)"/>
63 <data format='pdf' name="output3" lable="${tool.name} on ${on_string}: Allele Fraction Distributions (PDF)"/>
62 <data format='vcf' name='output2' label="${tool.name} on ${on_string}: VCF file" /> 64 <data format='vcf' name='output2' label="${tool.name} on ${on_string}: VCF file" />
63 </outputs> 65 </outputs>
64 <help> 66 <help>
65 67
66 **What it does** 68 **What it does**