Spatial Phylogenetic Reconstruction of Evolutionary Dynamics
Java HTML C Other
Latest commit 8f07a09 Sep 12, 2016 @fbielejec fbielejec committed on GitHub Update and rename README.textile to

Important This software is no longer actively maintained, users are encouraged to migrate to SpreaD3.

.:: SPREAD ::.

Spatial Phylogenetic Reconstruction of Evolutionary Dynamics Version: 1.0.7, 2015 Authors: Filip Bielejec, Andrew Rambaut, Marc A. Suchard & Philippe Lemey Homepage: License: LGPL


This is free software; you can redistribute it and/or modify it under the terms of the GNU Lesser General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version.

This software is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the "GNU Lesser General Public License": for more details.


SPREAD is a Java program supporting processing and visualizations of BEAST's phylogeographic models ("BEAST software":

Contains visualisations (templates), wrapped in a user friendly interface. Supported visualisations include embedded Processing applets and KML output for viewing in "Google Earth": or any other virtual globe software capable of reading the format.

A tutorial on using SPREAD is availiable "here":




Depends on the following libraries:

  • jebl.jar
  • core.jar
  • colt.jar
  • quaqua.jar (libquaqua64.jnilib, libquaqua.jnilib)


You're interested in contributing to SPREAD? THAT'S AWESOME! Here are the basic steps:

  1. fork SPREAD from here:
  2. Hack, hack, hack!
  3. Document your changes in the Changelog
  4. Push the changes
  5. Send a pull request to the phylogeography/SPREAD project.


  • Left panel stretches if a parsed attribute name is long
  • (Continous Tree) Relate the HPD areas shown as polygons in GoogleEarth with specific nodes of the tree
  • Rewrite Log file reader
  • Mean tree calculation (from .trees file)
  • Combobox for relaxed (from parser) / standard brownian motion (rate of 1)
  • Annotate the terminals in the tree with corresponding taxon names
  • Move all the parsing code to reader classes for trees -> avoid code duplication
  • Add command line interface for kml templates
  • Fix large scaling factor issues