mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 15:52:05 +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>
62 lines
1.8 KiB
YAML
62 lines
1.8 KiB
YAML
name: bcftools_view
|
|
description: View, subset and filter VCF or BCF files by position and filtering expression. Convert between VCF and BCF
|
|
keywords:
|
|
- variant calling
|
|
- view
|
|
- bcftools
|
|
- VCF
|
|
|
|
tools:
|
|
- view:
|
|
description: |
|
|
View, subset and filter VCF or BCF files by position and filtering expression. Convert between VCF and BCF
|
|
homepage: http://samtools.github.io/bcftools/bcftools.html
|
|
documentation: http://www.htslib.org/doc/bcftools.html
|
|
doi: 10.1093/bioinformatics/btp352
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- vcf:
|
|
type: file
|
|
description: |
|
|
The vcf file to be inspected.
|
|
e.g. 'file.vcf'
|
|
- index:
|
|
type: file
|
|
description: |
|
|
The tab index for the VCF file to be inspected.
|
|
e.g. 'file.tbi'
|
|
- regions:
|
|
type: file
|
|
description: |
|
|
Optionally, restrict the operation to regions listed in this file.
|
|
e.g. 'file.vcf'
|
|
- targets:
|
|
type: file
|
|
description: |
|
|
Optionally, restrict the operation to regions listed in this file (doesn't rely upon index files)
|
|
e.g. 'file.vcf'
|
|
- samples:
|
|
type: file
|
|
description: |
|
|
Optional, file of sample names to be included or excluded.
|
|
e.g. 'file.tsv'
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- vcf:
|
|
type: file
|
|
description: VCF normalized output file
|
|
pattern: "*.{vcf.gz}"
|
|
- version:
|
|
type: file
|
|
description: File containing software version
|
|
pattern: "versions.yml"
|
|
authors:
|
|
- "@abhi18av"
|