nf-core_modules/modules/vardictjava/meta.yml

60 lines
1.5 KiB
YAML

name: "vardictjava"
description: The Java port of the VarDict variant caller
keywords:
- variant calling
- VarDict
- AstraZeneca
tools:
- "vardictjava":
description: "Java port of the VarDict variant discovery program"
homepage: "https://github.com/AstraZeneca-NGS/VarDictJava"
documentation: "https://github.com/AstraZeneca-NGS/VarDictJava"
tool_dev_url: "https://github.com/AstraZeneca-NGS/VarDictJava"
doi: "10.1093/nar/gkw227 "
licence: "['MIT']"
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- bam:
type: file
description: BAM/SAM file
pattern: "*.{bam,sam}"
- bai:
type: file
description: Index of the BAM file
pattern: "*.bai"
- fasta:
type: file
description: FASTA of the reference genome
pattern: "*.{fa,fasta}"
- fasta_fai:
type: file
description: The index of the FASTA of the reference genome
pattern: "*.fai"
- bed:
type: file
description: BED with the regions of interest
pattern: "*.bed"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
- vcf:
type: file
description: VCF file output
pattern: "*.vcf.gz"
authors:
- "@nvnieuwk"