mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-22 19:18:17 +00:00
e745e167c1
* 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>
52 lines
1.4 KiB
YAML
52 lines
1.4 KiB
YAML
name: seqsero2
|
|
description: Salmonella serotype prediction from reads and assemblies
|
|
keywords:
|
|
- fasta
|
|
- fastq
|
|
- salmonella
|
|
- sertotype
|
|
tools:
|
|
- seqsero2:
|
|
description: Salmonella serotype prediction from genome sequencing data
|
|
homepage: https://github.com/denglab/SeqSero2
|
|
documentation: https://github.com/denglab/SeqSero2
|
|
tool_dev_url: https://github.com/denglab/SeqSero2
|
|
doi: "10.1128/AEM.01746-19"
|
|
licence: ["GPL v2"]
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- seqs:
|
|
type: file
|
|
description: FASTQ or FASTA formated sequences
|
|
pattern: "*.{fq.gz,fastq.gz,fna.gz,fna,fasta.gz,fasta,fa.gz,fa}"
|
|
|
|
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"
|
|
- log:
|
|
type: file
|
|
description: A log of serotype antigen results
|
|
pattern: "*_log.txt"
|
|
- tsv:
|
|
type: file
|
|
description: Tab-delimited summary of the SeqSero2 results
|
|
pattern: "*_result.tsv"
|
|
- txt:
|
|
type: file
|
|
description: Detailed summary of the SeqSero2 results
|
|
pattern: "*_result.txt"
|
|
|
|
authors:
|
|
- "@rpetit3"
|