nf-core/scoary @ 0.0.0-6c4ed3a
Summary
Use pangenome outputs for GWAS
Get started
Add the following snippet to your workflow script to include this module.
include { SCOARY } from 'nf-core/scoary'
License
MIT License
Process
Name
|
SCOARY |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
genes
file
|
A presence/absence matrix of genes in the pan-genome *.csv
|
traits
file
|
A CSV file containing trait information per-sample *.csv
|
tree
file
|
A Newick formatted tree for phylogenetic analyses *.{dnd,nwk,treefile}
|
|---|
Output
2 channels
#1
csv
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.csv
file
|
Gene associations in a CSV file per trait *.csv
|
#2
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| scoary | Microbial pan-GWAS using the output from Roary | https://github.com/AdmiralenOla/Scoary |
| Version | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:43:38 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fscoary/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/scoary/blobs/sha256:97fd42fb8bb3596cea6eb53616bf85bfedd8ea256353909c74b7ad86a75bc8b7 |
| Size | 2.2 KB |
| Checksum | sha256:97fd42fb8bb3596cea6eb53616bf85bfedd8ea256353909c74b7ad86a75bc8b7 |
| Downloads | 2 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:43:38 (UTC) | 2 | 2.2 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:30:06 (UTC) | 3 | 2.2 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:35:18 (UTC) | 3 | 2.2 KB |