Manual and Other Resources
A good resource for new users is the MrBayes 3.2 manual, which contains instructions
for downloading and installing the program, two tutorials including a
qick-start version, discussions of all the models implemented
in the program, answers to some frequently asked questions, a list of
the differences between versions 2 and 3 of the program, instructions
for compiling and running the parallel version of the program, and tips
for users who want to tweak the source code or contribute bug fixes
or new functionality. In an appendix, there is a diagrammatic summary
of all the models implemented in the program and most of the
proposal mechanisms. You can download the manual (pdf)
MrBayes 3 provides extensive online help through the 'help' command.
Simply type 'help' at the command prompt to get a list of the available
commands. Type 'help ' to get help information for a specific
command. For instance, 'help lset' will give you the help information for
the 'lset' command, including a discussion of all the available parameters and
options. The help information for a command typically also includes
a summary table of the options and current settings.
You can produce a text file containing all the help information for the
current version of the program by using the 'manual' command in MrBayes. If
you produce this file immediately after starting the program, the text file
will contain all the default settings and can be used as a command reference.
If you prefer not to produce this file yourself, you can download a pdf copy
Finally, a good resource for resolving problems with MrBayes is the MrBayes
You can ask a question about MrBayes by simply posting a message to this list.
Before you can send a message to the list, however, you need to subscribe to it
as explained on the home page of the mailing list (see the link above). The
list archive is accessible to everyone.
Remember that MrBayes is free software and that it currently has thousands
of users around the world. Therefore, there is no possibility for the authors
to provide extensive user help. Please first read the manual and the command
reference carefully to make sure the problem you are having is not addressed
there. If this does not help, try using the MrBayes email list
to pose your question. If the problem you
are having seems to be a bug in the program, report it using the bug reporting
tool provided on SourceForge, as described here.
If you have general questions about the MrBayes project, the models and MCMC sampling
algorithms implemented in the program, or the future development of the project,
you are welcome to email the authors