Year: 2020
Type: article
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 AND IMPLEMENTATION: Treerecs is open-source. Its source code (C++, AGPLv3) and manuals are available from https://project.inria.fr/treerecs/.
Source: Bioinformatics
Institutions: Centre Inria de l'Université Grenoble Alpes, Heidelberg Institute for Theoretical Studies, University of Sarajevo, Centre National de la Recherche Scientifique, Université de Lyon, Laboratoire de Biométrie et Biologie Evolutive, École Pratique des Hautes Études, Université de Montpellier, Institut des Sciences de l'Evolution de Montpellier, Institut de Recherche pour le Développement, Karlsruhe Institute of Technology
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: green
Funder: Agence Nationale de la Recherche
OpenAlex ID: W3037744359