RecPhyloXML: a format for reconciled gene trees.

Détails

Ressource 1Télécharger: bty389.pdf (532.10 [Ko])
Etat: Serval
Version: Final published version
ID Serval
serval:BIB_F6316B688D65
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Titre
RecPhyloXML: a format for reconciled gene trees.
Périodique
Bioinformatics
Auteur(s)
Duchemin W., Gence G., Arigon Chifolleau A.M., Arvestad L., Bansal M.S., Berry V., Boussau B., Chevenet F., Comte N., Davín A.A., Dessimoz C., Dylus D., Hasic D., Mallo D., Planel R., Posada D., Scornavacca C., Szöllosi G., Zhang L., Tannier É., Daubin V.
ISSN
1367-4811 (Electronic)
ISSN-L
1367-4803
Statut éditorial
Publié
Date de publication
01/11/2018
Peer-reviewed
Oui
Volume
34
Numéro
21
Pages
3646-3652
Langue
anglais
Résumé
A reconciliation is an annotation of the nodes of a gene tree with evolutionary events-for example, speciation, gene duplication, transfer, loss, etc.-along with a mapping onto a species tree. Many algorithms and software produce or use reconciliations but often using different reconciliation formats, regarding the type of events considered or whether the species tree is dated or not. This complicates the comparison and communication between different programs.
Here, we gather a consortium of software developers in gene tree species tree reconciliation to propose and endorse a format that aims to promote an integrative-albeit flexible-specification of phylogenetic reconciliations. This format, named recPhyloXML, is accompanied by several tools such as a reconciled tree visualizer and conversion utilities.
http://phylariane.univ-lyon1.fr/recphyloxml/.
Pubmed
Web of science
Open Access
Oui
Création de la notice
17/05/2018 18:17
Dernière modification de la notice
09/05/2019 3:34
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