nf-core/seqsero2 @ 0.0.0-6c4ed3a
Summary
Salmonella serotype prediction from reads and assemblies
Get started
Add the following snippet to your workflow script to include this module.
include { SEQSERO2 } from 'nf-core/seqsero2'
License
MIT License
Process
Name
|
SEQSERO2 |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
seqs
file
|
FASTQ or FASTA formatted sequences *.{fq.gz,fastq.gz,fna.gz,fna,fasta.gz,fasta,fa.gz,fa}
|
Output
4 channels
#1
log
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
results/*_log.txt
file
|
A log of serotype antigen results *_log.txt
|
#2
tsv
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
results/*_result.tsv
file
|
Tab-delimited summary of the SeqSero2 results *_result.tsv
|
#3
txt
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
results/*_result.txt
file
|
Detailed summary of the SeqSero2 results *_result.txt
|
#4
versions_seqsero2
tuple
${task.process}
string
|
The name of the process |
|---|---|
seqsero2
string
|
The name of the tool |
SeqSero2_package.py --version 2>&1 | sed 's/^.*SeqSero2_package.py //'
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| seqsero2 | Salmonella serotype prediction from genome sequencing data | https://github.com/denglab/SeqSero2 |
| Version | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | cd0ad387832473916b1f1c80c2ca673a7883bf94 |
| Release Date | 23 Apr 2026 15:44:43 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fseqsero2/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/seqsero2/blobs/sha256:e7af5a7e58bb60bc714357ffb6b037ac21517645893c6d561691ca1eeac371f5 |
| Size | 2.3 KB |
| Checksum | sha256:e7af5a7e58bb60bc714357ffb6b037ac21517645893c6d561691ca1eeac371f5 |
| Downloads | 0 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-cd0ad38 | 19 May 2026 15:01:43 (UTC) | 0 | 2.5 KB | ↔ | |
| 0.0.0-6c4ed3a | 23 Apr 2026 15:44:43 (UTC) | 0 | 2.3 KB | ↔ | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:30:36 (UTC) | 0 | 2.3 KB | ↔ | |
| 0.0.0-0c7146d | 08 Apr 2026 19:36:58 (UTC) | 0 | 2.3 KB | - |