nf-core/shigeifinder @ 0.0.0-3fc6d40
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 | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 22 Apr 2026 15:31:06 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fshigeifinder/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/shigeifinder/blobs/sha256:d29463bee807bef774e0c383511b3580f2c415d94a1073e200574581dd891cee |
| Size | 2.5 KB |
| Checksum | sha256:d29463bee807bef774e0c383511b3580f2c415d94a1073e200574581dd891cee |
| Downloads | 2 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:46:01 (UTC) | 3 | 2.5 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:31:06 (UTC) | 2 | 2.5 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:37:44 (UTC) | 4 | 2.4 KB |