mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 15:52:05 +00:00
41 lines
1.2 KiB
YAML
41 lines
1.2 KiB
YAML
|
name: bedtools_bamtobed
|
||
|
|
description: Converts a bam file to a bed12 file.
|
||
|
|
keywords:
|
||
|
|
- bam
|
||
|
|
- bed
|
||
|
|
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
|
||
|
|
input:
|
||
|
|
- meta:
|
||
|
|
type: map
|
||
|
|
description: |
|
||
|
|
Groovy Map containing sample information
|
||
|
|
e.g. [ id:'test', single_end:false ]
|
||
|
|
- bam:
|
||
|
|
type: file
|
||
|
|
description: Input BAM file
|
||
|
|
pattern: "*.{bam}"
|
||
|
|
- 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 ]
|
||
|
|
- bed12:
|
||
|
|
type: file
|
||
|
|
description: Bed file with 12 columns containing all genomic intervals.
|
||
|
|
pattern: "*.{bed}"
|
||
|
|
- version:
|
||
|
|
type: file
|
||
|
|
description: File containing software version
|
||
|
|
pattern: "*.{version.txt}"
|
||
|
|
authors:
|
||
|
|
- "@yuukiiwa"
|