Vibrant

Description

VIBRANT is a tool for automated recovery and annotation of bacterial and archaeal viruses, determination of genome completeness, and characterization of viral community function from metagenomic assemblies.

Environment Modules

Run module spider vibrant to find out what environment modules are available for this application.

System Variables

HPC_VIBRANT_DIR - installation directory
HPC_VIBRANT_BIN - executable directory

Additional Information

Version 1.2.0 includes the following tools:

vRhyme
PropagAtE

Usage example:

$ module load vibrant/1.2.0
$ VIBRANT_run.py -h
$ vRhyme -h
$ Propagate -h

Citation

If you publish research that uses vibrant you have to cite it as follows:

VIBRANT

Kieft, K., Zhou, Z. & Anantharaman, K. VIBRANT: automated recovery, annotation and curation of microbial viruses, and evaluation of viral community function from genomic sequences. Microbiome 8, 90 (2020).

vRhyme

Kieft, K., Adams, A., Salamzade, R., Kalan, L., & Anantharaman, K. vRhyme enables binning of viral genomes from metagenomes. Nucleic Acids Research, 2022.

PropagAtE

Kieft, K., and Anantharaman, K. (2021). Deciphering active prophages from metagenomes. BioRxiv 2021.01.29.428894.