mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-10 20:23:10 +00:00
906577873b
* New functions.nf * Convert code to create versions.yml * Update meta.yml * update output channel * Fix more meta.yml * Manually update remaining modules * remove superflous echo * Fix misformatted meta.yml files * Fix yaml, was list instead of dict * fix version for bcftools Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
63 lines
1.7 KiB
YAML
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"
|
|
- version:
|
|
type: file
|
|
description: File containing software version
|
|
pattern: "versions.yml"
|
|
authors:
|
|
- "@arontommi"
|