mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-26 20:38:17 +00:00
50 lines
1.6 KiB
YAML
50 lines
1.6 KiB
YAML
|
name: bcftools_index
|
||
|
|
description: Index VCF tools
|
||
|
|
keywords:
|
||
|
|
- vcf
|
||
|
|
- index
|
||
|
|
- bcftools
|
||
|
|
- csi
|
||
|
|
- tbi
|
||
|
|
tools:
|
||
|
|
- bcftools:
|
||
|
|
description: BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed. Most commands accept VCF, bgzipped VCF and BCF with filetype detected automatically even when streaming from a pipe. Indexed VCF and BCF will work in all situations. Un-indexed VCF and BCF and streams will work in most, but not all situations.
|
||
|
|
homepage: https://samtools.github.io/bcftools/
|
||
|
|
documentation: https://samtools.github.io/bcftools/howtos/index.html
|
||
|
|
tool_dev_url: https://github.com/samtools/bcftools
|
||
|
|
doi: "10.1093/gigascience/giab008"
|
||
|
|
licence: ['GPL']
|
||
|
|
|
||
|
|
input:
|
||
|
|
- meta:
|
||
|
|
type: map
|
||
|
|
description: |
|
||
|
|
Groovy Map containing sample information
|
||
|
|
e.g. [ id:'test', single_end:false ]
|
||
|
|
- VCF:
|
||
|
|
type: file
|
||
|
|
description: VCF file (optionally GZIPPED)
|
||
|
|
pattern: "*.{vcf,vcf.gz}"
|
||
|
|
|
||
|
|
output:
|
||
|
|
- meta:
|
||
|
|
type: map
|
||
|
|
description: |
|
||
|
|
Groovy Map containing sample information
|
||
|
|
e.g. [ id:'test', single_end:false ]
|
||
|
|
- version:
|
||
|
|
type: file
|
||
|
|
description: File containing software version
|
||
|
|
pattern: "versions.yml"
|
||
|
|
- csi:
|
||
|
|
type: file
|
||
|
|
description: Default VCF file index file
|
||
|
|
pattern: "*.csi"
|
||
|
|
- tbi:
|
||
|
|
type: file
|
||
|
|
description: Alternative VCF file index file for larger files (activated with -t parameter)
|
||
|
|
pattern: "*.tbi"
|
||
|
|
|
||
|
|
authors:
|
||
|
|
- "@jfy133"
|