Salmonella serotype prediction from reads and assemblies
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}
log
results/*_log.txt
A log of serotype antigen results
*_log.txt
tsv
results/*_result.tsv
Tab-delimited summary of the SeqSero2 results
*_result.tsv
txt
results/*_result.txt
Detailed summary of the SeqSero2 results
*_result.txt
versions_seqsero2
${task.process}
:string
The name of the process
seqsero2
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
versions
Salmonella serotype prediction from genome sequencing data
