mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-10 20:23:10 +00:00
e27553b989
* Specify more guidelines on input channels * Linting * Updates based on code review * Update README.md * Fix broken sentence * feat: add megahit module, currently decompressed output * Update main.nf * Update tests/modules/megahit/test.yml Co-authored-by: Maxime Borry <maxibor@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * feat: compress all outputs, remove md5sums due to gz stochasicity * fix: wrong conda channel for pigz * fix: broken singleend tests and update meta.yml * Missed one * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * fix: pigz formatting * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Apply suggestions from code review * Add dedup (tests and version not working) * Fix dedup and tests Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> Co-authored-by: Maxime Borry <maxibor@users.noreply.github.com>
60 lines
1.5 KiB
YAML
60 lines
1.5 KiB
YAML
name: dedup
|
|
description: DeDup is a tool for read deduplication in paired-end read merging (e.g. for ancient DNA experiments).
|
|
keywords:
|
|
- dedup
|
|
- deduplication
|
|
- pcr duplicates
|
|
- ancient DNA
|
|
- paired-end
|
|
- bam
|
|
tools:
|
|
- dedup:
|
|
description: DeDup is a tool for read deduplication in paired-end read merging (e.g. for ancient DNA experiments).
|
|
homepage: https://github.com/apeltzer/DeDup
|
|
documentation: https://dedup.readthedocs.io/en/latest/
|
|
tool_dev_url: https://github.com/apeltzer/DeDup
|
|
doi: "10.1186/s13059-016-0918-z"
|
|
licence: ['GPL v3']
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- bam:
|
|
type: file
|
|
description: BAM/SAM file
|
|
pattern: "*.{bam,sam}"
|
|
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
- bam:
|
|
type: file
|
|
description: Deduplicated BAM file
|
|
pattern: "*_rmdup.bam"
|
|
- json:
|
|
type: file
|
|
description: JSON file for MultiQC
|
|
pattern: "*.json"
|
|
- hist:
|
|
type: file
|
|
description: Histogram data of amount of deduplication
|
|
pattern: "*.hist"
|
|
- log:
|
|
type: file
|
|
description: Dedup log information
|
|
pattern: "*log"
|
|
|
|
|
|
|
|
authors:
|
|
- "@jfy133"
|