mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-10 20:23:10 +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>
46 lines
1.6 KiB
YAML
46 lines
1.6 KiB
YAML
name: bedtools_genomecov
|
|
description: Computes histograms (default), per-base reports (-d) and BEDGRAPH (-bg) summaries of feature coverage (e.g., aligned sequences) for a given genome.
|
|
keywords:
|
|
- bed
|
|
- bam
|
|
- genomecov
|
|
tools:
|
|
- bedtools:
|
|
description: |
|
|
A set of tools for genomic analysis tasks, specifically enabling genome arithmetic (merge, count, complement) on various file types.
|
|
documentation: https://bedtools.readthedocs.io/en/latest/content/tools/genomecov.html
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- intervals:
|
|
type: file
|
|
description: BAM/BED/GFF/VCF
|
|
pattern: "*.{bam|bed|gff|vcf}"
|
|
- sizes:
|
|
type: file
|
|
description: Tab-delimited table of chromosome names in the first column and chromosome sizes in the second column
|
|
- extension:
|
|
type: string
|
|
description: Extension of the output file (e. g., ".bg", ".bedgraph", ".txt", ".tab", etc.) It is set arbitrarily by the user and corresponds to the file format which depends on arguments.
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- genomecov:
|
|
type: file
|
|
description: Computed genome coverage file
|
|
pattern: "*.${extension}"
|
|
- version:
|
|
type: file
|
|
description: File containing software version
|
|
pattern: "versions.yml"
|
|
authors:
|
|
- "@Emiller88"
|
|
- "@sruthipsuresh"
|
|
- "@drpatelh"
|
|
- "@sidorov-si"
|