nf-core_modules/modules/expansionhunter/meta.yml
Matthias Hörtenhuber e745e167c1
Fix formatting in yaml files, add yamllint config (#1279)
* fix yml formatting

* allow fastq.gz and fq.gz as file input, add meta.yml and test

* fix yaml files

* Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test"

This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4.

* prettier magic!

* fix comments for yamllint

* remove node version number

* fix linting errors

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00

50 lines
1.3 KiB
YAML

name: expansionhunter
description: write your description here
keywords:
- STR
- repeat_expansions
tools:
- expansionhunter:
description: A tool for estimating repeat sizes
homepage: https://github.com/Illumina/ExpansionHunter
documentation: https://github.com/Illumina/ExpansionHunter/blob/master/docs/01_Introduction.md
tool_dev_url: None
doi: "10.1093/bioinformatics/btz431"
licence: ["Apache-2.0"]
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- bam:
type: file
description: BAM/CRAM file
pattern: "*.{bam,cram}"
- fasta:
type: file
description: Reference genome
pattern: "*.{fa,fasta}"
- variant_catalog:
type: file
description: json file with repeat expansion sites to genotype
pattern: "*.{json}"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', gender:'female' ]
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
- vcf:
type: file
description: VCF with repeat expansions
pattern: "*.{vcf}"
authors:
- "@jemten"