README.md

q2-viromics

A QIIME 2 Plugin for detecting viral genomes and assessing their quality.

Installation

q2-viromics is available as part of the QIIME 2 pathogenome distribution. For installation and usage instructions please consult the official QIIME 2 documentation.

Usage

Start by downloading sample input datasets.

Fetch the checkV database:

qiime viromics checkv-fetch-db --o-database checkV_db.qza --verbose

Run the CheckV analysis:

qiime viromics checkv-analysis --i-sequences input_sequences.qza --i-database checkV_db.qza --p-num-threads 4 --output-dir checkV_output --verbose