glmmADMB

The glmmADMB package, built on the open-source AD Model Builder platform, is an R package for fitting generalized linear mixed models (GLMMs).

Its capabilities include:

In order to use glmmADMB effectively you should already be reasonably familiar with GLMMs, which in turn requires familiarity with (i) generalized linear models (e.g. the special cases of logistic, binomial, and Poisson regression) and (ii) 'modern' mixed models (those working via maximization of the marginal likelihood rather than by manipulating sums of squares).

Please visit the following webpages for more information about the glmmADMB package (please note the latter is somewhat out of date, although it may still contain useful information):

Installation

  1. First try
    install.packages("glmmADMB", repos="http://r-forge.r-project.org", type="source")
  2. If this fails (because you don't have the very latest version of R, or because R-forge is having a bad day), try
    install.packages("glmmADMB", repos=c("http://glmmadmb.r-forge.r-project.org/repos", getOption("repos")),type="source")
    ... with or without the type="source".
  3. Arni Magnusson has uploaded glmmADMB 0.8.0 (24 May 2014) for Linux and Windows (R 3.x) to a local repository:
    install.packages("glmmADMB", repos=c("http://www.hafro.is/~arnima/repos", getOption("repos")))
  4. If all else fails, contact the package maintainers.
  5. Note that recent versions of glmmADMB (>=0.7) require the R2admb package as well; under normal circumstances this should be installed automatically when you install glmmADMB, but if you run into trouble you should try solutions similar to those listed above.
  6. At present the binaries included in the glmmADMB will not run on MacOS 10.5 (Leopard) or earlier. If you encounter this problem, your choices are:
    • Upgrade your system to a more recent version of MacOS (if possible).
    • Build glmmadmb from its TPL file on your machine. This will be a bit tricky if you are not reasonably experienced.
      • Download the full AD Model Builder source code from the AD Model Builder download page and follow the directions for building AD Model Builder from source; you may need to install Xcode, and you may need to ask for help at users@admb-project.org. (Googling "admb macos 10.5" will be helpful as well, although it's possible that you will need the most recent version of the ADMB source code to compile glmmadmb.tpl properly ...)
      • find the glmmadmb.tpl file in the glmmADMB package directories and use ADMB to compile it to a binary
      • copy the resulting binary to the bin/macos32 or bin/macos64 directory as appropriate.
    • Contact the maintainers to appeal for help and find out if there any new developments in support for MacOS versions less than 10.6.
    • A similar process may work for other unsupported operating systems such as Solaris, but in that case it's also probably a good idea to contact the maintainers.

Additional documentation

Newer versions

Newer versions of glmmADMB (>0.6.4) have the following major changes:

The new release is somewhat slower (for the time being) than older (pre-0.5.2) versions: if you have a desperate need for a copy of an old version, you can download a source version and follow alternative #3 from the installation instructions above.