The yhat blog lists 10 R packages they wish they'd known about earlier. Drew Conway calls them "10 reasons to always start your analysis in R". They're all very useful R packages that every data scientist should be aware of. They are: sqldf (for selecting from data frames using SQL) forecast (for easy forecasting of time series) plyr (data...

Zero Inflated Models and Generalized Linear Mixed Models with R.
Zuur, Saveliev, Ieno (2012).