Chevenet François, Doyon J. P., Scornavacca C., Jacox E., Jousselin E., Berry V. (2016). SylvX : a viewer for phylogenetic tree reconciliations. Bioinformatics, 32 (4), p. 608-613. ISSN 1367-4803.
Titre du document
SylvX : a viewer for phylogenetic tree reconciliations
Chevenet François, Doyon J. P., Scornavacca C., Jacox E., Jousselin E., Berry V.
Source
Bioinformatics, 2016,
32 (4), p. 608-613 ISSN 1367-4803
Motivation: Reconciliation methods aim at recovering the evolutionary processes that shaped the history of a given gene family including events such as duplications, transfers and losses by comparing the discrepancies between the topologies of the associated gene and species trees. These methods are also used in the framework of host/parasite studies to recover co-diversification scenarios including co-speciation events, host-switches and extinctions. These evolutionary processes can be graphically represented as nested trees. These interconnected graphs can be visually messy and hard to interpret, and despite the fact that reconciliations are increasingly used, there is a shortage of tools dedicated to their graphical management. Here we present SylvX, a reconciliation viewer which implements classical phylogenetic graphic operators (swapping, highlighting, etc.) and new methods to ease interpretation and comparison of reconciliations (multiple maps, moving, shrinking sub-reconciliations).
Plan de classement
Sciences fondamentales / Techniques d'analyse et de recherche [020]
;
Informatique [122]
