Treerecs: an integrated phylogenetic tool, from sequences to reconciliations. - Inria - Institut national de recherche en sciences et technologies du numérique Access content directly
Journal Articles Bioinformatics Year : 2020

Treerecs: an integrated phylogenetic tool, from sequences to reconciliations.

Nicolas Comte

Abstract

Motivation
Gene and species tree reconciliation methods are used to interpret gene trees, root them and correct uncertainties that are due to scarcity of signal in multiple sequence alignments. So far, reconciliation tools have not been integrated in standard phylogenetic software and they either lack performance on certain functions, or usability for biologists.
Results
We present Treerecs, a phylogenetic software based on duplication-loss reconciliation. Treerecs is simple to install and to use. It is fast and versatile, has a graphic output, and can be used along with methods for phylogenetic inference on multiple alignments like PLL and Seaview.
Availability
Treerecs is open-source. Its source code (C ++, AGPLv3) and manuals are available from https://project.inria.fr/treerecs/
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Dates and versions

hal-02883386 , version 1 (15-12-2020)

Identifiers

Cite

Nicolas Comte, Benoît Morel, Damir Hasic, Laurent Guéguen, Bastien Boussau, et al.. Treerecs: an integrated phylogenetic tool, from sequences to reconciliations.. Bioinformatics, 2020, 36 (18), pp.4822-4824. ⟨10.1093/bioinformatics/btaa615⟩. ⟨hal-02883386⟩
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