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meta.yml
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meta.yml
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name: bedtools_sort
description: Sorts a feature file by chromosome and other criteria.
keywords:
- bed
- sort
- bedtools
- chromosome
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/sort.html
licence: ["MIT"]
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- intervals:
type: file
description: BED/BEDGRAPH
pattern: "*.{bed|bedGraph}"
- genome_file:
type: file
description: |
Optional reference genome 2 column file that defines the expected chromosome order.
pattern: "*.{fai,txt,chromsizes}"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- sorted:
type: file
description: Sorted output file
pattern: "*.${extension}"
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
authors:
- "@edmundmiller"
- "@sruthipsuresh"
- "@drpatelh"
- "@chris-cheshire"
- "@adamrtalbot"
maintainers:
- "@edmundmiller"
- "@sruthipsuresh"
- "@drpatelh"
- "@chris-cheshire"
- "@adamrtalbot"