mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-22 11:08:17 +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>
47 lines
1.4 KiB
YAML
47 lines
1.4 KiB
YAML
name: gatk4_variantfiltration
|
|
description: Filter variants
|
|
keywords:
|
|
- vcf
|
|
- filter
|
|
tools:
|
|
- gatk4:
|
|
description: |
|
|
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/categories/360002369672s
|
|
doi: 10.1158/1538-7445.AM2017-3590
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test']
|
|
- vcf:
|
|
type: list
|
|
description: Input VCF file
|
|
pattern: "*.{vcf}"
|
|
- fasta:
|
|
type: file
|
|
description: Fasta file of reference genome
|
|
pattern: "*.fasta"
|
|
- fai:
|
|
type: file
|
|
description: Index of fasta file
|
|
pattern: "*.fasta.fai"
|
|
- dict:
|
|
type: file
|
|
description: Sequence dictionary of fastea file
|
|
pattern: "*.dict"
|
|
output:
|
|
- vcf:
|
|
type: file
|
|
description: filtered VCF file
|
|
pattern: "*.filtered.{vcf}"
|
|
- version:
|
|
type: file
|
|
description: File containing software version
|
|
pattern: "versions.yml"
|
|
authors:
|
|
- "@kevinmenden"
|