This is just a barebone template that shows how to organize files in order to generate a LaTeX report directly from R by using the knitr package. The example here is for a basic thesis file, although the document class is not so important. See this branch for an example with a different template.

You can use a combination of tex and Rnw files to write everything, and the compilation can be done in Windows and Linux in 3 ways:

• By directly running the .bat or bash scripts (double click or command line)
  • This performs any updates done to tex files without running any R code
• Calling the .bat or bash scripts followed by FALSE
  • This also runs all the R code sequentially
• Calling the .bat or bash scripts followed by TRUE
  • This also runs all the R code with parallel support

You must have Rscript on your path for the last two options. Also, you'll need the doParallel package for the last option.

Examples (Linux):

./compile-linux
./compile-linux FALSE
./compile-linux TRUE

The PDF file contains more specifics and explanations of the sample content.

Used R packages in this sample

• xtable
• ggplot2
• reshape2
• caret
• randomForest