mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-23 03:28:17 +00:00
55 lines
1.5 KiB
YAML
55 lines
1.5 KiB
YAML
name: "haplocheck"
|
|
description: |
|
|
Haplocheck detects contamination patterns in mtDNA AND WGS sequencing studies by analyzing
|
|
the mitochondrial DNA. Haplocheck also works as a proxy tool for nDNA studies and provides
|
|
users a graphical report to investigate the contamination further. Internally, it uses the
|
|
Haplogrep tool, that supports rCRS and RSRS mitochondrial versions.
|
|
keywords:
|
|
- mitochondrial
|
|
- mtDNA
|
|
- contamination
|
|
tools:
|
|
- "haplocheck":
|
|
description: "Detects in-sample contamination in mtDNA or WGS sequencing studies by analyzing the mitochondrial content."
|
|
homepage: "https://github.com/genepi/haplocheck"
|
|
documentation: "https://github.com/genepi/haplocheck"
|
|
tool_dev_url: "https://github.com/genepi/haplocheck"
|
|
doi: 10.1101/gr.256545.119
|
|
licence: "['MIT']"
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
|
|
- vcf:
|
|
type: file
|
|
description: VCF file
|
|
pattern: "*.{vcf.gz}"
|
|
|
|
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"
|
|
|
|
- txt:
|
|
type: file
|
|
description: Raw report in txt format
|
|
pattern: "*.{txt}"
|
|
|
|
- html:
|
|
type: file
|
|
description: Haplocheck HTML report
|
|
pattern: "*.{txt}"
|
|
|
|
authors:
|
|
- "@lmtani"
|