vibrant

Description

vibrant website

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.

Environment Variables

• HPC_VIBRANT_DIR - installation directory
• HPC_VIBRANT_BIN - executable directory

Additional Usage 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.

Categories

genomics