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    46 repositories

    • teachmri

      Public
      Routines for teaching MRI principles in Stanford's Psych 204A
      MATLAB
      •8•12•0•0•Updated Dec 19, 2024Dec 19, 2024

    • vistasoft

      Public
      VISTASOFT is the main software repository of the VISTA lab at Stanford University.
      MATLAB
      •141•148•71•9•Updated Dec 9, 2024Dec 9, 2024

    • scitran

      Public
      Utilities to interact with Flywheel from the client side using the Matlab SDK.
      MATLAB
      •
      GNU General Public License v3.0
      •5•5•3•0•Updated Oct 8, 2024Oct 8, 2024

    • BrainBeat

      Public
      MATLAB
      •
      MIT License
      •3•2•3•0•Updated Sep 9, 2024Sep 9, 2024

    • PRFmodel

      Public
      MATLAB
      •
      MIT License
      •7•13•28•1•Updated Aug 9, 2024Aug 9, 2024

    • fw-gear-dtiinit-diffusion-maps

      Public
      Generate diffusion maps from dt6
      MATLAB
      •1•1•0•1•Updated Mar 14, 2024Mar 14, 2024

    • RTP-preproc

      Public
      RTP-preproc runs the mrTrix3 preprocessing pipeline in the diffussion data. It uses FSLs topup when the optional inverted phase encoding files are found, otherwise uses the eddy tool. It performs some other denoising steps, and it can normalize or align to acpc the data
      Shell
      •7•0•0•0•Updated Apr 9, 2022Apr 9, 2022

    • vistateach

      Public
      Matlab tutorials for courses in reading, image science, and MR
      MATLAB
      •7•7•2•0•Updated Apr 19, 2021Apr 19, 2021

    • RTP-pipeline

      Public
      Docker based Gear that runs the Reproducible Tract Profiles (RTP) pipeline
      Python
      •9•6•0•0•Updated Feb 5, 2021Feb 5, 2021

    • acpc-anat

      Public
      Normalize anatomicals to RAS and to acpc registering to MNI or providing AC-PC coordinates.
      Shell
      •
      MIT License
      •0•0•0•0•Updated Sep 4, 2020Sep 4, 2020

    • docker

      Public
      A repository for vistalab docker files
      Python
      •11•25•0•0•Updated Feb 11, 2020Feb 11, 2020

    • retinalcurvature

      Public
      Estimating the retinal curvature using rabbit and then human
      MATLAB
      •0•0•0•0•Updated Oct 16, 2019Oct 16, 2019

    • vistadisp

      Public
      MATLAB
      •16•14•6•0•Updated Sep 20, 2019Sep 20, 2019

    • scitran-data

      Public
      Data Readers and Writers
      Python
      •
      MIT License
      •8•4•6•0•Updated Jul 24, 2019Jul 24, 2019

    • RTP-bvec-flip-detect

      Public
      Neuro detect leverages the possibilities of deep learning to automatically detect and correct formatting errors of MRI scan data.
      Python
      •1•0•0•0•Updated Jun 25, 2019Jun 25, 2019

    • mrQ

      Public
      MATLAB
      •
      MIT License
      •13•0•0•0•Updated Apr 16, 2019Apr 16, 2019

    • rtp

      Public
      Reproducible Tract Pipeline
      0•0•0•0•Updated Feb 23, 2019Feb 23, 2019

    • vistacompile

      Public
      Repository where we place special vistasoft functions that we compile for containers
      0•0•0•0•Updated Oct 22, 2018Oct 22, 2018

    • dwi-flip-bvec

      Public
      Flips bvec x, y, or z
      Shell
      •
      MIT License
      •1•0•0•0•Updated Oct 3, 2018Oct 3, 2018

    • coverageReading

      Public
      Analyzing visual field coverage (field of view) in ventral occipital cortex. Emphasis on reading circuitry
      MATLAB
      •0•1•0•0•Updated Sep 10, 2018Sep 10, 2018

    • EnsembleTractography

      Public
      The code to perform the ensemble tractography and reproduce the results in the publication (Takemura et al. in press). Under construction.
      MATLAB
      •1•0•0•0•Updated Aug 24, 2018Aug 24, 2018

    • qmr_web

      Public
      PHP
      •0•0•0•0•Updated Jul 24, 2017Jul 24, 2017

    • encode

      Public
      Method for encoding brain connectomes in multidimensional arrays (tensors).
      MATLAB
      •25•0•0•0•Updated May 29, 2017May 29, 2017

    • itkgray

      Public
      ITKGray Branch of ITKSnap Src
      C++
      •
      GNU General Public License v3.0
      •1•2•0•0•Updated May 24, 2017May 24, 2017

    • JSONio

      Public
      JSONio: a MATLAB JSON library
      C
      •
      Other
      •7•0•0•0•Updated Apr 20, 2017Apr 20, 2017

    • contrack_score

      Public
      Matlab implementation of ConTrack_score
      MATLAB
      •0•1•0•0•Updated Dec 8, 2016Dec 8, 2016

    • dwi-tools-source

      Public
      Includes source code for ConTrack, Quench, DTIQuery and other tools
      C++
      •0•0•0•0•Updated Dec 8, 2016Dec 8, 2016

    • iqdwi

      Public
      Image quality for diffusion weighted imaging
      0•0•0•0•Updated Oct 21, 2016Oct 21, 2016

    • vistatest

      Public
      MATLAB
      •6•1•1•0•Updated Aug 1, 2015Aug 1, 2015

    • elastic_basis_pursuit

      Public
      Elastic Basis Pursuit
      Python
      •
      MIT License
      •2•0•0•0•Updated Apr 27, 2015Apr 27, 2015