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planemo upload commit 33927a87ba2eee9bf0ecdd376a66241b17b3d734
author devteam
date Tue, 13 Oct 2015 12:59:18 -0400
parents 765f626ebd5a
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5:01bb3234beb9 6:a6e0edfcfdae
1 <tool id="vcftools_annotate" name="Annotate" version="0.1"> 1 <tool id="vcftools_annotate" name="Annotate" version="0.1">
2 <description>a VCF dataset with filters</description> 2 <description>a VCF dataset with custom filters</description>
3 3
4 <requirements> 4 <requirements>
5 <requirement type="binary">echo</requirement> 5 <requirement type="binary">echo</requirement>
6 <requirement type="package" version="0.1.11">vcftools</requirement> 6 <requirement type="package" version="0.1.11">vcftools</requirement>
7 </requirements> 7 </requirements>
45 <output name="output" file="test_out1.vcf" lines_diff="2" /> 45 <output name="output" file="test_out1.vcf" lines_diff="2" />
46 </test> 46 </test>
47 </tests> 47 </tests>
48 48
49 <help> 49 <help>
50 Please see the VCFtools `documentation`__ for help and further information. 50 Annotates VCF dataset with custom annotations. For example, if this format tag is used for allele frequency:
51 51
52 .. __: http://vcftools.sourceforge.net/docs.html 52 ##FORMAT=&lt;ID=FREQ,Number=1,Type=String,Description=&quot;Variant allele frequency&quot;&gt;
53
54 you can add a filter for allele frequency using &quot;FORMAT/FREQ&quot; as the tag name and the condition &quot;>= [desired allele freq]&quot;
55
56 Please see the VCFtools `documentation`__ for help and further information.
57
58 .. __: http://vcftools.sourceforge.net/perl_module.html#vcf-annotate
53 </help> 59 </help>
54 </tool> 60 </tool>