mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-14 13:43:09 +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>
51 lines
1.3 KiB
YAML
51 lines
1.3 KiB
YAML
name: scoary
|
|
description: Use pangenome outputs for GWAS
|
|
keywords:
|
|
- gwas
|
|
- pangenome
|
|
- prokaryote
|
|
tools:
|
|
- scoary:
|
|
description: Microbial pan-GWAS using the output from Roary
|
|
homepage: https://github.com/AdmiralenOla/Scoary
|
|
documentation: https://github.com/AdmiralenOla/Scoary
|
|
tool_dev_url: https://github.com/AdmiralenOla/Scoary
|
|
doi: "10.1186/s13059-016-1108-8"
|
|
licence: ["GPL v3"]
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- genes:
|
|
type: file
|
|
description: A presence/absence matrix of genes in the pan-genome
|
|
pattern: "*.csv"
|
|
- traits:
|
|
type: file
|
|
description: A CSV file containing trait information per-sample
|
|
pattern: "*.csv"
|
|
- tree:
|
|
type: file
|
|
description: A Newick formtted tree for phylogenetic analyses
|
|
pattern: "*.{dnd,nwk,treefile}"
|
|
|
|
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"
|
|
- csv:
|
|
type: file
|
|
description: Gene associations in a CSV file per trait
|
|
pattern: "*.csv"
|
|
|
|
authors:
|
|
- "@rpetit3"
|