mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-22 11:08:17 +00:00
e3e61068c1
* add module for seroba * fix lint * Update modules/seroba/run/meta.yml Co-authored-by: Sébastien Guizard <sguizard@ed.ac.uk> * Update modules/seroba/run/main.nf Co-authored-by: Sébastien Guizard <sguizard@ed.ac.uk>
47 lines
1.3 KiB
YAML
47 lines
1.3 KiB
YAML
name: "seroba_run"
|
|
description: Determine Streptococcus pneumoniae serotype from Illumina paired-end reads
|
|
keywords:
|
|
- fastq
|
|
- serotype
|
|
- Streptococcus pneumoniae
|
|
tools:
|
|
- "seroba":
|
|
description: "SeroBA is a k-mer based pipeline to identify the Serotype from Illumina NGS reads for given references."
|
|
homepage: "https://sanger-pathogens.github.io/seroba/"
|
|
documentation: "https://sanger-pathogens.github.io/seroba/"
|
|
tool_dev_url: "https://github.com/sanger-pathogens/seroba"
|
|
doi: "10.1099/mgen.0.000186"
|
|
licence: "['GPL v3']"
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- reads:
|
|
type: file
|
|
description: Input Illunina paired-end FASTQ files
|
|
pattern: "*.{fq.gz,fastq.gz}"
|
|
|
|
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"
|
|
- tsv:
|
|
type: file
|
|
description: The predicted serotype in tab-delimited format
|
|
pattern: "*.tsv"
|
|
- txt:
|
|
type: file
|
|
description: A detailed description of the predicted serotype
|
|
pattern: "*.txt"
|
|
|
|
authors:
|
|
- "@rpetit3"
|