nf-core_modules/modules/bismark/report/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

60 lines
1.6 KiB
YAML

name: bismark_report
description: Collects bismark alignment reports
keywords:
- bismark
- qc
- methylation
- 5mC
- methylseq
- bisulphite
- report
tools:
- bismark:
description: |
Bismark is a tool to map bisulfite treated sequencing reads
and perform methylation calling in a quick and easy-to-use fashion.
homepage: https://github.com/FelixKrueger/Bismark
documentation: https://github.com/FelixKrueger/Bismark/tree/master/Docs
doi: 10.1093/bioinformatics/btr167
licence: ["GPL-3.0-or-later"]
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- align_report:
type: file
description: Bismark alignment reports
pattern: "*{report.txt}"
- splitting_report:
type: file
description: Bismark splitting reports
pattern: "*{splitting_report.txt}"
- dedup_report:
type: file
description: Bismark deduplication reports
pattern: "*.{deduplication_report.txt}"
- mbias:
type: file
description: Text file containing methylation bias information
pattern: "*.{txt}"
- fasta:
type: file
description: Input genome fasta file
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- report:
type: file
description: Bismark reports
pattern: "*.{html,txt}"
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
authors:
- "@phue"