nf-core_modules/modules/gatk4/combinegvcfs/meta.yml

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name: gatk4_combinegvcfs
description: Combine per-sample gVCF files produced by HaplotypeCaller into a multi-sample gVCF file
keywords:
- gvcf
- gatk4
- vcf
- combinegvcfs
- Short_Variant_Discovery
tools:
- gatk4:
description:
Genome Analysis Toolkit (GATK4). Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools
with a primary focus on variant discovery and genotyping. Its powerful processing engine
and high-performance computing features make it capable of taking on projects of any size.
homepage: https://gatk.broadinstitute.org/hc/en-us
documentation: https://gatk.broadinstitute.org/hc/en-us/articles/360037593911-CombineGVCFs
tool_dev_url: https://github.com/broadinstitute/gatk
doi: 10.1158/1538-7445.AM2017-3590
licence: ["Apache-2.0"]
input:
- fasta:
type: file
description: The reference fasta file
pattern: "*.fasta"
- fai:
type: file
description: FASTA index file
pattern: "*.{fai}"
- dict:
type: file
description: FASTA dictionary file
pattern: "*.{dict}"
- vcf:
type: file
description: Compressed VCF files
pattern: "*.vcf.gz"
- vcf_idx:
type: file
description: VCF Index file
pattern: "*.{fai}"
output:
- gvcf:
type: file
description: Compressed Combined GVCF file
pattern: "*.combined.g.vcf.gz"
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
authors:
- "@sateeshperi"
- "@mjcipriano"
- "@hseabolt"