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PGT (PhyloGeographic Tree)

Name:PGT
Main function:Plot a phylogenetic tree onto a geographic region using Bing or Google Maps.
Requirement:A good internet connection
Keywords:phylogeography, biodiversity, biogeography, speciation, phylogenetics
Version:1.0.0.0
Publisher:XiaLab
Support:Dr. Xuhua Xia at xxia@uottawa.ca
Citation:Xia X (2017) PGT: Phylogeographic Tree for Mapping a Phylogeny onto Geographic Regions. http://dambe.bio.uottawa.ca/PGT/PGT.aspx

PGT produces the highest resolution of geophylogenies, but is the easiest to use. Here are sample output:

Usage:

  • Just a few clicks to install (see platform-specific installation below)
  • Click 'File|Open' to open a sample file, e.g., Banza.pgt (which is in plain text) that comes with installation.
  • Hold down the right mouse to drag the map
  • Use the middle mouse wheel to resize the geophylogeny on the map
  • Click the 'Map' menu to choose regular or satellite map
  • Click the 'Map|Raised|0.5' to see a raised geophylogeny.

The following prerequisites are required:

For Windows 64-bit computers:
  • Windows Installer 4.5
  • Microsoft .NET Framework 4 Client Profile (x86 and x64)

If these components are already installed, you can launch the application now. Otherwise, install the prerequisites and run the application. For Macintosh and Linux computers with Mono installed (I tested PGT on Ubuntu Linux and Macintosh El Capitan):

  1. Download and unzip PGT.zip to a directory, say ~/PGT.
  2. Open a terminal windows and type the following commands:
    sudo apt-get install mono-vbnc (Otherwise you may encounter an error unless you have issued the command before)
    cd ~/PGT
    chmod 755 *
  3. Installation is now complete. Type mono PGT.exe to run. For 64-bit MAC, type mono --arch=32 PGT.exe instead (Tip from Dr. Rutger Vos)
  4. Here is a screenshot of PGT on Ubuntu with a satellite map, and another of PGT on Macintosh with a regular map.
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