mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-10 20:23:10 +00:00
52 lines
1.4 KiB
YAML
52 lines
1.4 KiB
YAML
name: tiddit_cov
|
|
description: Computes the coverage of different regions from the bam file.
|
|
keywords:
|
|
- coverage
|
|
- bam
|
|
- statistics
|
|
- chromosomal rearrangements
|
|
tools:
|
|
- tiddit:
|
|
description: TIDDIT - structural variant calling.
|
|
homepage: https://github.com/SciLifeLab/TIDDIT
|
|
documentation: https://github.com/SciLifeLab/TIDDIT/blob/master/README.md
|
|
doi: "10.12688/f1000research.11168.1"
|
|
licence: ["GPL v3"]
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- input:
|
|
type: file
|
|
description: BAM/CRAM file
|
|
pattern: "*.{bam,cram}"
|
|
- fasta:
|
|
type: file
|
|
description: |
|
|
Reference genome file. Only needed when passing in CRAM instead of BAM.
|
|
If not using CRAM, please pass an empty file instead.
|
|
pattern: "*.fasta"
|
|
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- cov:
|
|
type: file
|
|
description: The coverage of different regions. Optional.
|
|
pattern: "*.tab"
|
|
- wig:
|
|
type: file
|
|
description: The coverage of different regions in WIG format. Optional.
|
|
pattern: "*.wig"
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
authors:
|
|
- "@projectoriented"
|