PGT (PhyloGeographic Tools)

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. 2019. PGT: Visualizing temporal and spatial biogeographic patterns. Global Ecology & Biogeography 28:1195-1199

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

• (New)Geophylogeny for Hawaiian katydids, with vertical lines scaled to branch lengths on google terrain map
• (New)Same geophylogeny with branches colored differently

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.

If your 64-bit Windows PC already has .NET 8 installed, download and run PGT.msi, otherwise, run setup.exe.

1. Download PGT.msi
2. Download Whisky and unzip it.
3. (Let me know if the Whisky link above becomes unavailable)
4. Follow the concise instructions
5. When you see "PGT" with a green arrow above, double-click "PGT" and wait for 10 seconds (only for the first time) during which there seems no response, but PGT will eventually start.
6. Follow the concise instructions

For Linux computers:

1. You need to install Wine for running Windows programs on Linux
1. Open a terminal windows and type the following command:
   sudo apt install --install-recommends winehq-stable
2. Now download PGT.msi
3. In the terminal window, cd to the location of the PGT.msi file.
4. Type the following commands in the terminal windows:
   wine msiexec /i PGT.msi
5. The installation is now complete. cd to the directory where PGT.exe resides and type
   wine PGT.exe
6. You may need to include the .NET runtime if it is not installed by default