mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 07:42:05 +00:00
59 lines
1.4 KiB
YAML
59 lines
1.4 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:
|
|
# Only when we have meta
|
|
- 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}"
|
|
|
|
- reference_fasta:
|
|
type: file
|
|
description: FASTA of the reference genome
|
|
pattern: "*.{fa,fasta}"
|
|
|
|
- regions_of_interest:
|
|
type: file
|
|
description: BED with the regions of interest
|
|
pattern: "*.bed"
|
|
|
|
output:
|
|
#Only when we have meta
|
|
- 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"
|