nf-core_modules/software/bedtools/slop/meta.yml

76 lines
2.2 KiB
YAML
Raw Normal View History

name: bedtools_slop
description: Adds a specified number of bases in each direction (unique values may be specified for either -l or -r)
keywords:
2020-11-13 19:16:55 +00:00
- bed
- slopBed
tools:
2020-11-13 19:16:55 +00:00
- 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/slop.html
params:
2020-11-13 19:16:55 +00:00
- l:
type: integer
description: The number of base pairs to subtract from the start coordinate
- r:
type: integer
description: The number of base pairs to add to the end coordinate
- b:
type: integer
description: Increases the entry by the same number base pairs in each direction
- pct:
type: boolean
description: |
Define -l and -r as a fraction of the features length. E.g. if used on a 1000bp feature, -l 0.50, will add 500 bp “upstream”. By default this is set to false.
2020-11-13 19:16:55 +00:00
- header:
type: boolean
description: |
Print the header from the input file prior to results.
2020-11-13 19:16:55 +00:00
- 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
input:
2020-11-13 19:16:55 +00:00
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- bed:
type: file
description: List of bed files
pattern: "*.{bed}"
output:
2020-11-13 19:16:55 +00:00
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- bed:
type: file
description: Edited bed file
2021-01-28 14:24:33 +00:00
pattern: "*.{slop.bed}"
2020-11-13 19:16:55 +00:00
- version:
type: file
description: File containing software version
pattern: "*.{version.txt}"
authors: -"@Emiller88"
-"@sruthipsuresh"