Microbial 'omics

Anvi’o in a nutshell

Anvi’o is an analysis and visualization platform for ‘omics data. It brings together many aspects of today’s cutting-edge genomic, metagenomic, and metatranscriptomic analysis practices to address a wide array of needs.

Citation

Eren AM, Esen ÖC, Quince C, Vineis JH, Morrison HG, Sogin ML, Delmont TO. (2015) Anvi’o: an advanced analysis and visualization platform for ‘omics data. PeerJ 3:e1319

Please see the “Tutorials” pull-down menu on this page for some example workflows with anvi’o. Anvi’o is a community-driven, GPL-licensed open-source project. You can browse its codebase by clicking here.

Click here to download our poster from the ISME conference in Montreal: eren-isme-poster-72dpi.png

Anvi’o would not have been possible without the help of many people who directly or indirectly contributed to its development. Here is the acknowledgements section of our methods paper, where we had the chance to name some of the individuals who helped us:

We thank Faruk Uzun, Doğan Can Kilment, Gökmen Göksel, S. Çağlar Onur, and Gökmen Görgen for their contributions to the code base, and Rich Fox for administering our servers. We thank Inés Martínez for testing anvi’o, and for her valuable suggestions throughout the development of the platform. We thank Sheri Simmons for suggesting the application of oligotyping to the metagenomic data to characterize single-nucleotide variation. We also thank Itai Sharon, Luis M. Rodridugez-R, Will A. Overholt, Olivia U. Mason, Etienne Yergeau, and their colleagues for making valuable datasets available to the science community and for answering our questions.

All posts anvi’o

Anvi'o events (Thu, Aug 18, 2016)

A resource to find out whether an anvi'o event is coming to a location near you.

Installing anvi'o (Sun, Jun 26, 2016)

Instructions to install the v2 branch of the platform.

Binning without mapping (Mon, Jun 06, 2016)

So you have an assembly, or a draft genome, or a MAG, but no metagenomic short reads? That's OK.