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c363d8c37c
* added gvcftools/extractvariants * linting * Update modules/gvcftools/extractvariants/meta.yml Co-authored-by: Júlia Mir Pedrol <mirp.julia@gmail.com> * Update modules/gvcftools/extractvariants/main.nf Co-authored-by: Júlia Mir Pedrol <mirp.julia@gmail.com> * added uncompressed input handling Co-authored-by: Júlia Mir Pedrol <mirp.julia@gmail.com>
45 lines
1.2 KiB
YAML
45 lines
1.2 KiB
YAML
name: "gvcftools_extractvariants"
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description: Removes all non-variant blocks from a gVCF file to produce a smaller variant-only VCF file.
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keywords:
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- gvcftools
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- extract_variants
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- extractvariants
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- gvcf
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- vcf
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tools:
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- "gvcftools":
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description: "gvcftools is a package of small utilities for creating and analyzing gVCF files"
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homepage: "{https://sites.google.com/site/gvcftools/home}"
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documentation: "{https://sites.google.com/site/gvcftools/home/configuration-and-analysis}"
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tool_dev_url: "{https://github.com/sequencing/gvcftools}"
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doi: ""
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licence: "['MIT']"
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input:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- gvcf:
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type: file
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description: GVCF file
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pattern: "*.{g.vcf,gvcf}.gz"
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output:
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- versions:
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type: file
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description: File containing software versions
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pattern: "versions.yml"
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- vcf:
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type: file
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description: Converted variant-only VCF file
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pattern: "*.vcf.gz"
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authors:
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- "@nvnieuwk"
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