PhyloSuite

PhyloSuite is an integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies. It combines the functions of two previous tools: MitoTool (https://github.com/dongzhang0725/MitoTool) and BioSuite (https://github.com/dongzhang0725/BioSuite).

The interface and the main functions of PhyloSuite.

The workflow diagram of PhyloSuite.

The summary of flowchart and references of used programs.

Installation

Installers for all platforms can be downloaded from https://github.com/dongzhang0725/PhyloSuite/releases.

Windows

Windows 7, 8 and 10 are supported, just double click the PhyloSuite_xxx_win_setup.exe to install, and run “PhyloSuite.exe” file after the installation. If the installation fails, download PhyloSuite_xxx_Win.zip, unzip it, and run PhyloSuite directly from this folder.

Mac OSX & Linux

Unzip PhyloSuite_xxx_Mac.zip/PhyloSuite_xxx_Linux.tar.gz to anywhere you like, and double click “PhyloSuite” (in PhyloSuite folder) to start, or use the following command:

cd path/to/PhyloSuite
./PhyloSuite

If you encounter an error of "permission denied", try to use the following command:

chmod -R 755 path/to/PhyloSuite(folder)

Note that both 64 bit and 32 bit Windows and Mac OSX versions are supported, whereas only 64 bit has been tested in Linux (ubuntu).

Examples

https://github.com/dongzhang0725/PhyloSuite/tree/master/example

Bug report

https://github.com/dongzhang0725/PhyloSuite/issues or send email to dongzhang0725@gmail.com.

Citation

Zhang, D., Gao, F., Li, W.X., Jakovlić, I., Zou, H., Zhang, J., and Wang, G.T. (2018). PhyloSuite: an integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies. bioRxiv, doi: 10.1101/489088. (Download as: RIS XML ENW)