Description

Serogroup Pseudomonas aeruginosa assemblies

Input

name:type
description
pattern

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

fasta:file

An assembly in FASTA format

*.{fasta,fasta.gz,fna,fna.gz,fa,fa.gz}

Output

name:type
description
pattern

tsv

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

${prefix}.tsv:file

A tab-delimited file with the predicted serogroup

*.tsv

blast

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

${prefix}.blastn.tsv:file

A tab-delimited file of all blast hits

*.blastn.tsv

details

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

${prefix}.details.tsv:file

A tab-delimited file with details for each serogroup

*.details.tsv

versions

versions.yml:file

File containing software versions

versions.yml

Tools

pasty
Apache-2.0

A tool for in silico serogrouping of Pseudomonas aeruginosa isolates