Mercurial > repos > dfornika > ivar_variants_to_vcf
comparison ivar_variants_to_vcf.xml @ 0:c87f6ad32fd8 draft default tip
"planemo upload for repository https://github.com/dfornika/galaxytools/tree/master/tools/ivar_variants_to_vcf commit 16332019b4aab6af58c74e631f390dfeef23a3dc"
| author | dfornika |
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| date | Fri, 05 Jun 2020 05:10:05 +0000 |
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| children |
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| -1:000000000000 | 0:c87f6ad32fd8 |
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| 1 <tool id="ivar_variants_to_vcf" name="iVar Variants to VCF" version="0.1.0"> | |
| 2 <description>Convert iVar tabular variant output to .vcf format</description> | |
| 3 <requirements /> | |
| 4 <command detect_errors="exit_code"><![CDATA[ | |
| 5 '$__tool_directory__/ivar_variants_to_vcf.py' | |
| 6 -ma '${min_allele_freq}' | |
| 7 ${input} | |
| 8 ${output} | |
| 9 ]]></command> | |
| 10 <inputs> | |
| 11 <param name="input" type="data" format="tabular" /> | |
| 12 <param name="min_allele_freq" type="float" min="0.0" value="0.0" max="1.0" /> | |
| 13 </inputs> | |
| 14 <outputs> | |
| 15 <data name="output" label="Variants (VCF)" format="vcf" /> | |
| 16 </outputs> | |
| 17 <tests> | |
| 18 <test> | |
| 19 <param name="input" value="SAMEA6808195-variants.tsv" /> | |
| 20 <param name="min_allele_freq" value="0.5" /> | |
| 21 <output name="output" file="SAMEA6808195-variants.vcf" lines_diff="2"/> | |
| 22 </test> | |
| 23 </tests> | |
| 24 <help><![CDATA[ | |
| 25 ]]></help> | |
| 26 <citations> | |
| 27 <citation type="doi">10.5281/zenodo.3872730</citation> | |
| 28 </citations> | |
| 29 </tool> |