<> = Processing pipeline = To call the FDT GUI, either run `Fdt` (`Fdt_gui` on a Mac), or run `fsl` and press the '''FDT''' button. A typical processing pipeline (and approximate time required for each stage, based on an Intel 2.4GHz processor, and a 60-direction whole brain dataset of dimensions 128x128x64, at 2.5 mm isotropic resolution) would consist of: 1. Any study or scanner-specific pre-processing (e.g., conversion from DICOM to NIFTI, removal of images affected by large artifacts). This would be done manually by the user. 1. Eddy current correction using FDT (around 3 minutes per volume). 1. Brain extraction using BET. 1. dtifit - Fitting of diffusion tensors on corrected data using dtifit within FDT to check data quality (1 minute) 1. bedpostx - Fitting of the probabilistic diffusion model on corrected data (20 hours, or less if parallelised) 1. registration - (3-6 minutes) 1. probtrackx - Probabilistic tractography run on the output of bedpostx (endless.. - depends very much on what the user wishes to do. Generating a connectivity distribution from a single voxel of interest takes about 10 seconds) 1. Further post-processing of `probtrackx` outputs can be carried out if required using the command-line utilities ---- [[CategoryFDT]]