Mercurial > repos > devteam > vcffixup
comparison vcffixup.xml @ 0:a03f346b6aae draft
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| author | devteam |
|---|---|
| date | Thu, 19 Mar 2015 14:30:34 -0400 |
| parents | |
| children | 9d7e64e4b9fc |
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| -1:000000000000 | 0:a03f346b6aae |
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| 1 <tool id="vcffixup" name="VCFfixup:" version="0.0.3"> | |
| 2 <description>Count the allele frequencies across alleles present in each record in the VCF file</description> | |
| 3 <macros> | |
| 4 <import>macros.xml</import> | |
| 5 </macros> | |
| 6 <expand macro="requirements"></expand> | |
| 7 <expand macro="stdio" /> | |
| 8 <command>vcffixup "${input1}" > "${out_file1}"</command> | |
| 9 <inputs> | |
| 10 <param format="vcf" name="input1" type="data" label="Select VCF dataset"/> | |
| 11 </inputs> | |
| 12 <outputs> | |
| 13 <data format="vcf" name="out_file1" /> | |
| 14 </outputs> | |
| 15 <tests> | |
| 16 <test> | |
| 17 <param name="input1" value="vcflib.vcf"/> | |
| 18 <output name="out_file1" file="vcffixup-test1.vcf"/> | |
| 19 </test> | |
| 20 </tests> | |
| 21 <help> | |
| 22 | |
| 23 Uses genotypes from the selected VCF dataset to correct AC (alternate allele count), AF (alternate allele frequency), NS (number of called), in the VCF records. | |
| 24 | |
| 25 ---- | |
| 26 | |
| 27 Vcffixup @IS_PART_OF_VCFLIB@ | |
| 28 </help> | |
| 29 <expand macro="citations" /> | |
| 30 </tool> |