nf-core/shigeifinder @ 0.0.0-0c7146d
Summary
Determine Shigella serotype from assemblies or Illumina paired-end reads
Get started
Add the following snippet to your workflow script to include this module.
include { SHIGEIFINDER } from 'nf-core/shigeifinder'
License
MIT License
Process
Name
|
SHIGEIFINDER |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
seqs
file
|
Assembly or paired-end Illumina reads *.{fasta,fasta.gz,fastq.gz}
|
Output
2 channels
#1
tsv
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.tsv
file
|
A TSV formatted file with ShigEiFinder results *.tsv
|
#2
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| shigeifinder | Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies | https://mgtdb.unsw.edu.au/ShigEiFinder/ |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 19:13:53 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fshigeifinder/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/shigeifinder/blobs/sha256:1f9f8397fe75c5171204a7b8288241df8007fb7ed00c67b89bc841a1a7b9c58b |
| Size | 2.4 KB |
| Checksum | sha256:1f9f8397fe75c5171204a7b8288241df8007fb7ed00c67b89bc841a1a7b9c58b |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 19:13:53 (UTC) | 1 | 2.4 KB | - |