Identify cap locus serotype and structure in your Haemophilus influenzae assemblies
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
fasta{:bash}
:file
FASTA formatted assembly file
*.{fasta,fasta.gz,fa,fa.gz,fna,fna.gz}
database_dir{:bash}
:directory
Optional - Directory containing locus database
*/*
model_fp{:bash}
Optional - Prodigal model to use for gene prediction
*.{bin}
gbk{:bash}
*.gbk{:bash}
GenBank file and cap locus annotations
*.gbk
svg{:bash}
*.svg{:bash}
Visualization of annotated cap locus
*.svg
tsv{:bash}
*.tsv{:bash}
Detailed summary of cap locus annotations
*.tsv
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
In silico typing of the H. influenzae capsule locus
