Explorative Analysis and Visualisation of Multiple Sequence Alignments
Alvis is an open-source platform for the joint explorative analysis of MSAs and phylogenetic trees, employing Sequence Bundles as its main visualization method. Alvis combines the power of the visualization method with an interactive toolkit allowing detection of covariant sites, annotation of trees with synapomorphies and homoplasies, and motif detection. It also offers numerical analysis functionality, such as dimension reduction and classification. Alvis is user-friendly, highly customizable and can export results in publication-quality figures. It is available as a full-featured standalone version (http://www.bitbucket.org/rfs/alvis) and its Sequence Bundles visualization module is further available as a web application (http://science-practice.com/projects/sequence-bundles).
2D, Network / hierarchy graph
Mac OSX, Windows
Java 7 (update 67 or later); Approx. 200MB disk space; Minimum 2GB RAM (4GB recommended); For advanced features: R with rJava and "kernlab" package
Last updated on 9th February, 2017