mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2025-01-18 02:46:13 -05:00
3aacd46da2
* backfilled modules with meta.yml that had no license identifier * harmonized BSD license names * whitespace linting at modules/unzip/meta.yml:12 * harmonized software from US NIH-NCBI/NIST to 'US-Government-Work' * Update modules/bcftools/index/meta.yml `bcftools` is dual-licensed, use associative array to allow for multiple licenses Co-authored-by: Michael L Heuer <heuermh@acm.org> Co-authored-by: Michael L Heuer <heuermh@acm.org>
60 lines
1.6 KiB
YAML
60 lines
1.6 KiB
YAML
name: kraken2_kraken2
|
|
description: Classifies metagenomic sequence data
|
|
keywords:
|
|
- classify
|
|
- metagenomics
|
|
- fastq
|
|
- db
|
|
tools:
|
|
- kraken2:
|
|
description: |
|
|
Kraken2 is a taxonomic sequence classifier that assigns taxonomic labels to sequence reads
|
|
homepage: https://ccb.jhu.edu/software/kraken2/
|
|
documentation: https://github.com/DerrickWood/kraken2/wiki/Manual
|
|
doi: 10.1186/s13059-019-1891-0
|
|
licence: ['MIT']
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- reads:
|
|
type: file
|
|
description: |
|
|
List of input FastQ files of size 1 and 2 for single-end and paired-end data,
|
|
respectively.
|
|
- db:
|
|
type: directory
|
|
description: Kraken2 database
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- classified:
|
|
type: file
|
|
description: |
|
|
Reads classified to belong to any of the taxa
|
|
on the Kraken2 database.
|
|
pattern: "*{fastq.gz}"
|
|
- unclassified:
|
|
type: file
|
|
description: |
|
|
Reads not classified to belong to any of the taxa
|
|
on the Kraken2 database.
|
|
pattern: "*{fastq.gz}"
|
|
- txt:
|
|
type: file
|
|
description: |
|
|
Kraken2 report containing stats about classified
|
|
and not classifed reads.
|
|
pattern: "*.{report.txt}"
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
authors:
|
|
- "@joseespinosa"
|
|
- "@drpatelh"
|