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BrainGraph - Graph Theory Analysis of Brain MRI Data in R
brainGraph (RRID: SCR_017260) is an R package for performing graph theory analyses of brain MRI data. It is most useful in atlas-based analyses (e.g., using an atlas such as AAL, or one from Freesurfer); however, many of the computations (e.g., the GLM-based functions and the network-based statistic) will work with any graph that is compatible with igraph. The package will perform analyses for structural covariance networks (SCN), DTI tractography (I use probtrackx2 from FSL), and resting-state fMRI covariance (I have used the Matlab-based DPABI toolbox).