09
Nov
2013
admin

GARLI Web Service

Here we provide a web service for GARLI version 2.1, a maximum-likelihood phylogenetic analysis program developed and maintained by Derrick Zwickl. GARLI analyses submitted through this web interface run on a grid system at the University of Maryland known as The Lattice Project. If you would like to participate by running these GARLI analyses on your own computing resources, please connect to our BOINC project.

A description of the service and its features has been published (Bazinet, Zwickl and Cummings 2014). Thus, if you use the GARLI web service in your research, please cite this reference. We maintain a list of publications that have used the grid system; if your publication should be listed, please let us know!

The GARLI web service allows the user to submit up to 1000 best tree search replicates in "adaptive" mode, or 2000 bootstrap replicates in a single submission. You will gain additional functionality if you register for an account on molecularevolution.org and submit jobs as a registered user. For example, you will be able to upload and reuse input files, bypass the captcha when you submit jobs, and access advanced job management features.

The latest version of the GARLI web service includes the following features:

  • an adaptive best tree search, which automatically determines the required number of search replicates to perform on behalf of the user
  • a guided mode for specifying partitioned analyses, which should make this task easier in some cases
  • "clone job", which enables one to use previously submitted analyses as a starting point
  • web-based visualization of the best tree or the bootstrap consensus tree
  • support for a variety of amino acid models

If you have questions or feedback, please feel free to contact us at the email addresses below.