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Journal articles

Thirdkind: displaying phylogenetic encounters beyond 2-level reconciliation

Simon Penel 1 Hugo Menet 1 Théo Tricou 1 Vincent Daubin 1 Eric Tannier 1, 2
2 BEAGLE - Artificial Evolution and Computational Biology
LIRIS - Laboratoire d'InfoRmatique en Image et Systèmes d'information, Inria Grenoble - Rhône-Alpes, LBBE - Laboratoire de Biométrie et Biologie Evolutive - UMR 5558
Abstract : Motivation Reconciliation between a host and its symbiont phylogenies or between a species and a gene phylogenies is a prevalent approach in evolution, however no simple generic tool (i.e. virtually usable by all reconciliation software, from host/symbiont to species/gene comparisons) is available to visualise reconciliation results. Moreover there is no tool to visualise 3-levels reconciliations, i.e. to visualise 2 nested reconciliations as for example in a host/symbiont/gene complex. Results Thirdkind is a light and easy to install command line software producing svg files displaying reconciliations, including 3-levels reconciliations. It takes a standard format recPhyloXML as input, and is thus usable with most reconciliation software. Availability https://github.com/simonpenel/thirdkind/wiki Supplementary information Supplementary data are available at Bioinformatics online.
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https://hal.archives-ouvertes.fr/hal-03563666
Contributor : Eric Tannier Connect in order to contact the contributor
Submitted on : Wednesday, March 30, 2022 - 1:24:26 PM
Last modification on : Monday, May 16, 2022 - 3:00:06 PM

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Simon Penel, Hugo Menet, Théo Tricou, Vincent Daubin, Eric Tannier. Thirdkind: displaying phylogenetic encounters beyond 2-level reconciliation. Bioinformatics, Oxford University Press (OUP), 2022, pp.1-3. ⟨10.1093/bioinformatics/btac062⟩. ⟨hal-03563666⟩

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