nf-core_modules/modules/bismark/deduplicate/meta.yml
Harshil Patel e937c7950a
Rename software/ directory to modules/ to re-organise module structure (#567)
* Update README

* Rename pytest_software.yml to pytest_modules.yml

* Rename main software directory to modules

* Remove deprecated modules

* Rename tests software to modules

* Replace paths for tests in pytest_modules.yml

* Replace software with modules in Github Actions

* Replace software with modules in main.nf tests

* Rename software to modules in test.yml
2021-07-07 10:10:18 +01:00

51 lines
1.5 KiB
YAML

name: bismark_deduplicate
description: |
Removes alignments to the same position in the genome
from the Bismark mapping output.
keywords:
- bismark
- 3-letter genome
- map
- methylation
- 5mC
- methylseq
- bisulphite
- bam
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
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- bam:
type: file
description: BAM file containing read alignments
pattern: "*.{bam}"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- bam:
type: file
description: Deduplicated output BAM file containing read alignments
pattern: "*.{deduplicated.bam}"
- report:
type: file
description: Bismark deduplication reports
pattern: "*.{deduplication_report.txt}"
- version:
type: file
description: File containing software version
pattern: "*.{version.txt}"
authors:
- "@phue"