Genesis and Gappa: Processing, Analyzing and Visualizing Phylogenetic (Placement) Data

Abstract

We present GENESIS, a library for working with phylogenetic data, and GAPPA, an accompanying command line tool for conducting typical analyses on such data. The tools target phylogenetic trees and phylogenetic placements, sequences, taxonomies, and other relevant data types, offer high-level simplicity as well as low-level customizability, and are computationally efficient, well-tested, and field-proven. Availability and ImplementationBoth GENESIS and GAPPA are written in modern C++11, and are freely available under GPLv3 at http://github.com/lczech/genesis and http://github.com/lczech/gappa. Contactlucas.czech@h-its.org and alexandros.stamatakis@h-its.org.