Get 1000 Hours free
On the UCSD Supercomputer
Start Your Trial
The RevBayes interface allows users to submit to Expanse, a large NSF XSEDE Resource.
How to use it::
RevBayes is really a programming language, rather than a specific code. As such it is extremely versatile. By the same token, it is extremely difficult to offer all the options in a point and click interface.
It is designed to be used from the command line. We have adapted the code to CIPRES as a first pass by allowing the user to upload a minimum of two files: a data file, and a script file. The "Input data" for the job is the data file, in Nexus format. The script file provides the instructions for operating upon the data set. We have also added the ability to add auxiliary files. CIPRES has to control the names of the files you submit with your job, and so your scriptfile must call files that correspond to the names we have specified. As long as the names are spelled correctly, the files can be anything you wish to call. If this model does not meet your needs, please let me know, I can add more features.
Manual for RevBayes 1.1.1:
RevBayes mail list:
RevBayes home page here.
INPUT = matrix containing some combinaion of dna, protein, and morphological data in Nexus format
Required auxillary file: scriptfile to specify how to operate on the data file.
Simple Example of Run Input/Output
| Input File Type | File Name |
| input file | revbayes_datafile.nex |
| script file | scriptfile.txt |
| Output File Type | File Name |
| log files | revbayes_stdout.txt |
| _run_1.SquamMol_Log | |
| _run_2.SquamMol_Log | |
| tree output | _run_1.SquamMol_Trees |
| _run_2.SquamMol_Trees |
If you use RevBayes, pelase cite: Höhna, Landis, Heath, Boussau, Lartillot, Moore, Huelsenbeck, Ronquist. 2016. RevBayes: Bayesian phylogenetic inference using graphical models and an interactive model-specification language. Systematic Biology, 65:726-736.
If there is a tool or a feature you need, please let us know.
