raxmlGUI 2.01, a complete rewrite of raxmlGUI2, is a graphical user interface to RAxML3, 4, one of the most popular and widely used software for phylogenetic inference using maximum likelihood. All in an intuitive graphical front-end to set up and run phylogenetic analyses

Basic screenshot of raxmlGUI light theme Basic screenshot of raxmlGUI dark theme

Features

This is the initial release of raxmlGUI 2.0, featuring:

The console of raxmlGUI

Seamless integration with RAxML and RAxML-NG

raxmlGUI includes pre-compiled versions of RAxML and RAxML-ng and does not require any dependency.

(RAxML-ng is not available on Windows)

The partition editor in raxmlGUI

Concatenation & partitioning

Built-in functions to concatenate alignment files with automatic partition settings. The default partition can be edited with an intuitive partition editor.

Model selection in raxmlGUI

One-click model selection

Possibility to select the best-fit model of evolution for DNA or protein alignments using ModelTest-NG5.

(ModelTest-NG is not available on Windows 7 or lower)

A basic pipeline in raxmlGUI

Pipelines for analyses

Automated pipelines for analyses that require multiple successive calls of RAxML.

The partition editor in raxmlGUI

Parallelization

Easily run several analyses in parallel, and use multiple CPUs for one analysis.

The program presented here is the first release, the most important functions and analyses are implemented and functional. However, we encourage users to send us any feedback they may have. raxmlGUI 2.0 facilitates phylogenetic analyses by coupling an intuitive interface with the unmatched performance of RAxML. Read more in the accompanying paper.

1 Edler, D., J. Klein, A. Antonelli, and D. Silvestro. 2020. raxmlGUI 2.0: A graphical interface and toolkit for phylogenetic analyses using RAxML. Methods in Ecology and Evolution, doi: http://dx.doi.org/10.1111/2041-210X.13512

2 Silvestro, D. and I. Michalak. 2012. raxmlGUI: a graphical front-end for RAxML. Organisms Diversity and Evolution 12:335–337.

3 Stamatakis, A. 2014. Raxml version 8: a tool for phylogenetic analysis andpost-analysis of large phylogenies. Bioinformatics 30:1312–1313.

4 Kozlov, A. M., D. Darriba, T. Flouri, B. Morel, and A. Stamatakis. 2019. RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference. Bioinformatics 35:4453–4455.

5 Darriba, D., D. Posada, A. M. Kozlov, A. Stamatakis, B. Morel, T. Flouri. 2020. ModelTest-NG: A New and Scalable Tool for the Selection of DNA and Protein Evolutionary Models. Molecular Biology and Evolution 37:291–294.