Anvi’o : an advanced analysis and visualization platform for ‘omics data
Eren, A. Murat
Esen, Ozcan C.
Vineis, Joseph H.
Morrison, Hilary G.
Sogin, Mitchell L.
Delmont, Tom O.
MetadataShow full item record
Advances in high-throughput sequencing and ‘omics technologies are revolutionizing studies of naturally occurring microbial communities. Comprehensive investigations of microbial lifestyles require the ability to interactively organize and visualize genetic information and to incorporate subtle differences that enable greater resolution of complex data. Here we introduce anvi’o, an advanced analysis and visualization platform that offers automated and human-guided characterization of microbial genomes in metagenomic assemblies, with interactive interfaces that can link ‘omics data from multiple sources into a single, intuitive display. Its extensible visualization approach distills multiple dimensions of information about each contig, offering a dynamic and unified work environment for data exploration, manipulation, and reporting. Using anvi’o, we re-analyzed publicly available datasets and explored temporal genomic changes within naturally occurring microbial populations through de novo characterization of single nucleotide variations, and linked cultivar and single-cell genomes with metagenomic and metatranscriptomic data. Anvi’o is an open-source platform that empowers researchers without extensive bioinformatics skills to perform and communicate in-depth analyses on large ‘omics datasets.
© The Author(s), 2015. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PeerJ 3 (2015): e1319, doi:10.7717/peerj.1319.
Suggested CitationPeerJ 3 (2015): e1319
The following license files are associated with this item:
Showing items related by title, author, creator and subject.
Lerner, Steven A. (Woods Hole Oceanographic Institution, 1999-08)Visual is a visualization system used to access and analyze high-volume multi-sensor data collected from remotely operated underwater vehicles. Since 1991, scientists have used Visual for scientific visualization and ...
Tactical decisions for changeable cuttlefish camouflage : visual cues for choosing masquerade are relevant from a greater distance than visual cues used for background matching Buresch, Kendra C.; Ulmer, Kimberly M.; Cramer, Corinne; McAnulty, Sarah; Davison, William; Mathger, Lydia M.; Hanlon, Roger T. (Marine Biological Laboratory, 2015-10-01)Cuttlefish use multiple camouflage tactics to evade their predators. Two common tactics are background matching (resembling the background to hinder detection) and masquerade (resembling an uninteresting or inanimate object ...
Kunz, Clayton G.; Singh, Hanumant (2012-10)We present a system for automatically building 3-D maps of underwater terrain fusing visual data from a single camera with range data from multibeam sonar. The six-degree of freedom location of the camera relative to the ...