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SUMMARY: 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 IMPLEMENTATION: Both 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. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
Czech et al. (Tue,) studied this question.