(This article was first published on dylan's blog, and kindly contributed to R-bloggers)
Thanks to some help from Pierre Roudier, the aqp package now has some new S4-style classes and methods-- custom tailored to the complexities of soil profile data. These new classes/methods are only available in the aqp development branch, found on our R-Forge repository. A couple of examples are presented below. Note that methods may change at any time, so consider these examples preliminary.
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Zero Inflated Models and Generalized Linear Mixed Models with R.
Zuur, Saveliev, Ieno (2012).