Here you'll store your final statistical analysis scripts. You should add the following piece of code to the start of each analysis script: library('ProjectTemplate); load.project(). You should also do your best to ensure that any code that's shared between the analyses in src is moved into the munge directory; if you do that, you can execute all of the analyses in the src directory in parallel. A future release of ProjectTemplate will provide tools to automatically execute every individual analysis from src in parallel.