Description

Taxonomic classification of metagenomic sequence data using a protein reference database

Input

Name (Type)
Description
Pattern

meta (map)

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

]

reads (file)

List of input fastq/fasta files of size 1 and 2 for single-end and paired-end data,
respectively.

*.{fastq,fq,fasta,fa,fsa,fas,fna,fastq.gz,fq.gz,fasta.gz,fa.gz,fsa.gz,fas.gz,fna.gz}

db (directory)

List containing the database and nodes files for Kaiju
e.g. [ ‘database.fmi’, ‘nodes.dmp’ ]

Output

Name (Type)
Description
Pattern

meta (map)

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

]

versions (file)

File containing software versions

versions.yml

results (file)

Results with taxonomic classification of each read

*.tsv