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PRF analysis with the analyzePRF code
SciTran DICOM Conversion Tool
DICOM/PAR-REC conversion to nifti using Rorden's dcm2niix
Extract metadata from raw DICOM data from Siemens, Philips, or GE.
Performs all, or any part of, the FreeSurfer cortical reconstruction process.
Flywheel Gear that runs the AFQ processing pipeline
Gannet analysis of edited MRS data
Uses fslmerge from FSL to merge datasets
Classification of par/rec MR data from Philips
DICOM/PAR-REC conversion to nifti using Rorden's dcm2nii (v.4AUG14)
Gear to generate files for afq browser
Split mutlti-shell dwi data into individual shells
Python implementation of AFQ
Normalize DWI data
Generate montage from NIfTI
AFQ Pipeline Gear using Flywheel SDK
Calculate the RMSE between a tensor fit from dtiInit and the diffusion weighted imaging data
FMRIB's Automated Segmentation Tool
Vistasoft (mrDiffusion) preprocessing pipeline for diffusion MR data
Run QA metrics (displacement, signal spikes) to create a quality assurance report (png) for an fMRI NIfTI using CNI/NIMS code
Applies the retinotopy templates from Benson et al. (2014) PLOS Comput Biol to a FreeSurfer subject output.
Co-Register a functional to an anatomical.
AFNI-based brain warping based on D99 Macaque Atlas warp scripts
FSL's Brain Extraction Tool (BET)
Reorient NIfTI data and metadata fields into RAS space
SPM8 with MATLAB MCR 2010a
Computes a transformation of multi-shell diffusion weighted data to a set of Spherical Harmonic coefficients and outputs 4D Spherical Harmonic coefficient data. This is a first step in the Schneider Lab HDFT diffusion reconstruction process.
Matlab Compiler Runtime for v9.0.1 (R2016a)
Automated Fiber Quantification
dtiPrep quality assurance algorithm