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 | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 19:13:31 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fseroba%2Frun/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/seroba/run/blobs/sha256:9c38575dac3de1477e2e290a030ca40ccf79a4bd0b73f9a41b47d548d6583d70 |
| Size | 2.2 KB |
| Checksum | sha256:9c38575dac3de1477e2e290a030ca40ccf79a4bd0b73f9a41b47d548d6583d70 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 19:13:31 (UTC) | 1 | 2.2 KB | - |