nf-core_modules/modules/strelka/germline/meta.yml

63 lines
1.7 KiB
YAML

name: strelka_germline
description: Strelka2 is a fast and accurate small variant caller optimized for analysis of germline variation
keywords:
- variantcalling
- germline
- wgs
- vcf
- variants
tools:
- strelka:
description: Strelka calls somatic and germline small variants from mapped sequencing reads
homepage: https://github.com/Illumina/strelka
documentation: https://github.com/Illumina/strelka/blob/v2.9.x/docs/userGuide/README.md
tool_dev_url: https://github.com/Illumina/strelka
doi: 10.1038/s41592-018-0051-x
licence: ['GPL v3']
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test']
- bam:
type: file
description: BAM file
pattern: "*.{bam}"
- bai:
type: file
description: BAM index file
pattern: "*.{bai}"
- target_bed:
type: file
description: An optional bed file
pattern: "*.{bed}"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test']
- vcf:
type: file
description: gzipped germline variant file
pattern: "*.{vcf.gz}"
- vcf_tbi:
type: file
description: index file for the vcf file
pattern: "*.vcf.gz.tbi"
- genome_vcf:
type: file
description: variant records and compressed non-variant blocks
pattern: "*_genome.vcf.gz"
- genome_vcf_tbi:
type: file
description: index file for the genome_vcf file
pattern: "*_genome.vcf.gz.tbi"
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
authors:
- "@arontommi"