nf-core/seroba/run @ 0.0.0-0c7146d
Summary
Determine Streptococcus pneumoniae serotype from Illumina paired-end reads
Get started
Add the following snippet to your workflow script to include this module.
include { SEROBA_RUN } from 'nf-core/seroba/run'
License
MIT License
Process
Name
|
SEROBA_RUN |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
reads
file
|
Input Illunina paired-end FASTQ files *.{fq.gz,fastq.gz}
|
Output
3 channels
#1
tsv
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
${prefix}/${prefix}.tsv
file
|
The predicted serotype in tab-delimited format *.tsv
|
#2
txt
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
${prefix}/detailed_serogroup_info.txt
file
|
A detailed description of the predicted serotype *.txt
|
#3
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| seroba | SeroBA is a k-mer based pipeline to identify the Serotype from Illumina NGS reads for given references. | https://sanger-pathogens.github.io/seroba/ |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 08 Apr 2026 19:37:23 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fseroba%2Frun/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/seroba/run/blobs/sha256:b1c8a201f86a33ceda2d8e6f9abd354a21e087f696ab0675a47c3232a434365b |
| Size | 2.2 KB |
| Checksum | sha256:b1c8a201f86a33ceda2d8e6f9abd354a21e087f696ab0675a47c3232a434365b |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:45:00 (UTC) | 3 | 2.3 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:30:54 (UTC) | 1 | 2.3 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:37:23 (UTC) | 1 | 2.2 KB |