mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-25 20:08:17 +00:00
63 lines
2.2 KiB
YAML
63 lines
2.2 KiB
YAML
name: bedtools_complement
|
|
description: Returns all intervals in a genome that are not covered by at least one interval in the input BED/GFF/VCF file.
|
|
keywords:
|
|
- bed
|
|
- complement
|
|
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/complement.html
|
|
params:
|
|
- outdir:
|
|
type: string
|
|
description: |
|
|
The pipeline's output directory. By default, the module will
|
|
output files into `$params.outdir/<SOFTWARE>`
|
|
- publish_dir_mode:
|
|
type: string
|
|
description: |
|
|
Value for the Nextflow `publishDir` mode parameter.
|
|
Available: symlink, rellink, link, copy, copyNoFollow, move.
|
|
- enable_conda:
|
|
type: boolean
|
|
description: |
|
|
Run the module with Conda using the software specified
|
|
via the `conda` directive
|
|
- singularity_pull_docker_container:
|
|
type: boolean
|
|
description: |
|
|
Instead of directly downloading Singularity images for use with Singularity,
|
|
force the workflow to pull and convert Docker containers instead.
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- bed:
|
|
type: file
|
|
description: Input BED file
|
|
pattern: "*.{bed}"
|
|
- sizes:
|
|
type: file
|
|
description: File which defines the chromosome lengths for a given genome
|
|
pattern: "*.{sizes}"
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- bed:
|
|
type: file
|
|
description: Bed file with all genomic intervals that are not covered by at least one record from the input file.
|
|
pattern: "*.{bed}"
|
|
- version:
|
|
type: file
|
|
description: File containing software version
|
|
pattern: "*.{version.txt}"
|
|
authors:
|
|
- "@Emiller88"
|
|
- "@sruthipsuresh"
|
|
- "@drpatelh"
|