This tool implements Random Field Theory and Hierarchical multiple comparison corrections specifically for Freesurfer's surface data.//Jorge Luis Bernal Rusiel. email: jbernal0019@yahoo.es

The tool depends on Worsley´s SurfStat toolbox which is already included as a tool’s subdirectory. You need also to have the Freesurfer’s freesurfer/matlab directory added to your Matlab’s search path. That’s all. 

Directions on how to use this tool are in the usage.txt file. I think it is a pretty easy way to perform RFT correction in Freesurfer. It can save you a lot of time, when compared with the Freesurfer’s simulation, and is usually more sensitive and flexible (eg. there are some restrictions for the design matrix that may prevent the use of Freesurfer’s permutation testing).

The tool also implements a method for optimizing the amount of smoothing in cortical thickness analyses which is based on a hierarchical RFT-FDR multiple comparison correction (Neuroimage 52, 158-171).