EvoLaps: a web interface to visualize continuous phylogeographic reconstructions
EvoLaps is a user-friendly interface aims to explore phylogeographic patterns thanks to a dynamic clustering of continuous latitude/longitude from consensus phylogeographic reconstructions. Questions and comments welcome: francois.chevenet@ird.fr

Overview EvoLaps aims at visualizing spatio-temporal spread of epidemics, from phylogenetic trees associated with continuous localities (computed ancestral latitude/longitude pairs associated with computed ancestral sequences).

Changes of localities, in a "Top-Down" reading of the tree (from the root to its leaves), are represented on a cartographic background using arcs between them. The bundle of arcs is a phylogeographic scenario.

A raw reading of these localities produces complex scenarios, more or less confusing and difficult to interpret. EvoLaps helps to synthetise these scenarios, by discretizing the continuous localities into clusters of regions using different methods/tools of clustering (Lasso, Anchor, Clade selections, Dynamic latitude/longitude grid, K-means).

The dynamic EvoLaps cluster definition is iterative, allowing more or less detailed phylogeographic scenarios. For instance, an analysis starts with a small number of large clusters, and selected clusters can be subdivided afterwards in order to detail a particular phase of the scenario.

Moreover, EvoLaps enables the computation of ancestral character states from discrete variables, and their superimposition on phylogeographic scenarios.



Citation Chevenet F, Fargette D, Guindon S, Bañuls AL. EvoLaps: a web interface to visualize continuous phylogeographic reconstructions. BMC Bioinformatics. 2021 Sep 27;22(1):463. doi: 10.1186/s12859-021-04386-z. PMID: 34579644; PMCID: PMC8474961. Chevenet et al., 2021

News Version 30 Nov. 2022 Version 29 Nov. 2022
Help User's Manual

Funding This work has been supported by The PALADIN project, publicly funded through the French National Research Agency under the “Investissements d’avenir” program with the reference ANR-10-LABX-04-01 Labex CEMEB, and support from the Agence Nationale pour la Recherche through the grant GENOSPACE.

Thanks We thank D. Hubert for system administration and A. Prudhon for English editing

Visitors