BrainSuite Diffusion Pipeline (BDP): Processing tools for diffusion-MRI

Divya Varadarajan, PhD Presenter
Athinoula A. Martinos Center for Biomedical Imaging, Harvard
Charlestown, Boston, MA 
United States
Software Demonstrations 
Diffusion weighted MRI has uniquely enabled the study of in vivo brain micro-architecture. However, accurate inferences from diffusion weighted images (DWI) require specialized processing. BrainSuite Diffusion Pipeline (BDP) offers an end-to-end processing pipeline for diffusion MRI that includes implementations of established as well as novel processing methods. It allows essential processing steps to correct localized susceptibility-induced geometric distortions, co-register DWI and T1 weighted MRI (T1w-MRI), estimate white matter orientations for tractography and estimate microstructure related quantitative maps. It also includes novel methods including registration-based distortion correction, INVERSION (Inverse contrast Normalization for Very Simple Registration)[2] based T1w-MRI/DWI co-registration and orientation distribution function (ODF) estimators called Funk-Radon and cosine transform (FRACT)[3] and EAP response function optimized (ERFO)[8] ODF, for improved tracking. In addition, BDP seamlessly integrates with BrainSuite's anatomical processing and image analysis tools, namely, Cortical Surface Extraction (CSE), Surface and Volume Registration (SVReg), BrainSuite Statistics toolbox in R (bssr) and graphical interface for visualization. BDP is available as an opensource software for Windows, Linux, MacOS, and is included as part of the BrainSuite BIDS App.[5] An interface is also provided for NiPype.[4]