title: SylvX: a viewer for phylogenetic tree reconciliations.
abstract: BACKGROUND
  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).
  
  
  METHODS
  SylvX is an open source, cross-platform, standalone editor available for Windows and Unix-like systems including OSX. It is publicly available at www.sylvx.org.
authors.affiliation: MIVEGEC, CNRS 5290, IRD 224, Université de Montpellier, France, Institut de Biologie Computationnelle, LIRMM, UMR 5506 CNRS, Université de Montpellier, France.
authors.forename: François
authors.initials: F
authors.lastname: Chevenet
authors.affiliation: Institut de Biologie Computationnelle, LIRMM, UMR 5506 CNRS, Université de Montpellier, France.
authors.forename: Jean-Philippe
authors.initials: JP
authors.lastname: Doyon
authors.affiliation: ISEM-UMR 5554 CNRS IRD, Université de Montpellier, France and.
authors.forename: Celine
authors.initials: C
authors.lastname: Scornavacca
authors.affiliation: ISEM-UMR 5554 CNRS IRD, Université de Montpellier, France and.
authors.forename: Edwin
authors.initials: E
authors.lastname: Jacox
authors.affiliation: INRA-UMR 1062 CBGP, Centre de Biologie pour la Gestion de Populations, Montferrier-sur-Lez, France.
authors.forename: Emmanuelle
authors.initials: E
authors.lastname: Jousselin
authors.affiliation: MIVEGEC, CNRS 5290, IRD 224, Université de Montpellier, France.
authors.forename: Vincent
authors.initials: V
authors.lastname: Berry
mesh_terms: D019143:Evolution, Molecular; D010802:Phylogeny; D012984:Software