Description

Construct the database necessary for checkv’s quality assessment

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘sample’, bin:‘1’ ]

fasta (file)

fasta file containing additional sequences for the existing checkv database

*.{fasta,fna,fa}

db (directory)

directory pointing to existing checkV database to avoid redownloading the database

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘sample’, bin:‘1’ ]

versions (file)

File containing software versions

versions.yml

checkv_db (directory)

directory pointing to database

author
Github user Joon-Klaps
get in touch
Ask a question on Slack Open an issue on GitHub

Tools

checkv
BSD License

Assess the quality of metagenome-assembled viral genomes.

bitbucket.org/berkeleylab/checkv 10.1038/s41587-020-00774-7