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@BRAIN-TO Brain Research in Advanced Imaging and Neuromodeling - Toronto

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    29 repositories

    • brain-to.github.io

      Public
      Web hosting site for documentation
      HTML
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Apr 20, 2026Apr 20, 2026

    • DBS-ElecNet

      Public
      An automated DBS electrode segmentation tool
      Python
      •
      MIT License
      •1•0•0•0•Updated Apr 8, 2026Apr 8, 2026

    • pyprf

      Public
      A free & open python tool for population receptive field analysis.
      Python
      •
      GNU General Public License v3.0
      •7•0•0•0•Updated Mar 18, 2026Mar 18, 2026

    • PyMoCo_v2

      Public
      Code for 3D Retrospective Motion Correction using Neural Network-assisted Joint Estimation (updated March 2025)
      Python
      •0•3•0•0•Updated Feb 20, 2026Feb 20, 2026

    • GIRFReco.jl

      Public
      An Open-Source End-to-End Pipeline for Spiral Magnetic Resonance Image (MRI) Reconstruction in Julia
      mrimri-reconstructionmri-brain
      mrimri-reconstructionmri-brain
      Julia
      •
      BSD 3-Clause "New" or "Revised" License
      •1•20•1•12•Updated Jul 24, 2025Jul 24, 2025

    • GECS

      Public
      Python
      •0•0•0•0•Updated Nov 15, 2024Nov 15, 2024

    • tv_ec

      Public
      Python
      •0•0•0•0•Updated Nov 13, 2024Nov 13, 2024

    • scale_ec

      Public
      Python
      •0•1•0•0•Updated Nov 13, 2024Nov 13, 2024

    • boldreams

      Public
      Python
      •1•0•0•0•Updated Oct 16, 2024Oct 16, 2024

    • bto_mri_protocols_info

      Public
      This is a repository of wiki, code and containers for post-processing data acquired using the BRAIN-TO imaging protocols on a Siemens Prisma 3 T
      Python
      •
      MIT License
      •1•1•0•0•Updated Feb 20, 2024Feb 20, 2024

    • MRIGradients.jl

      Public
      Julia version of MRI gradient descriptions and GIRF applications.
      Julia
      •
      BSD 3-Clause "New" or "Revised" License
      •0•2•1•3•Updated Feb 7, 2024Feb 7, 2024

    • CapsNet

      Public
      Deep fMRI Encoding Models of Human Vision using Capsule Networks
      machine-learningcomputer-visionneuroscience
      machine-learningcomputer-visionneuroscienceartificial-intelligenceneuroimagingconvolutional-neural-networksfmrihuman-visioncapsule-network
      Jupyter Notebook
      •
      MIT License
      •0•3•0•0•Updated Dec 6, 2023Dec 6, 2023

    • xnat_utilities

      Public
      Code base for XNAT applications
      Python
      •0•1•0•0•Updated Aug 2, 2023Aug 2, 2023

    • FaceOff

      Public
      ANTs-based commandline utilities for (1) consistent, super-fast defacing of anatomical MRI images (2) dielectric pad masking
      Shell
      •4•0•0•0•Updated Jul 6, 2023Jul 6, 2023

    • presurfer

      Public
      Scripts to prepare MP2RAGE for Freesurfer
      MATLAB
      •9•1•0•0•Updated Jul 6, 2023Jul 6, 2023

    • misc_scripts

      Public
      Repository for scripts that are too small for their own repo, but useful enough for sharing.
      Shell
      •0•0•0•0•Updated May 18, 2023May 18, 2023

    • book-chapter-uhf-neuro-mri

      Public
      Educational Code related to book chapter 24 of "Ultra High Field Neuro MRI" - BOLD fMRI: Physiology and Acquisition strategies
      MATLAB
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•0•Updated May 1, 2023May 1, 2023

    • cubric-physio

      Public
      Physiological Noise Correction using the PhysIO Toolbox - Examples for CUBRIC, Cardiff
      MATLAB
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Nov 22, 2022Nov 22, 2022

    • h4h_cluster_info

      Public
      Updated documentation about accessing the h4h cluster - Authored by Mia Mojica and Ariana Besik
      1•1•0•0•Updated Nov 11, 2022Nov 11, 2022

    • MRIRecipes.jl

      Public
      Julia
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•0•0•Updated Jul 29, 2022Jul 29, 2022

    • PDCM

      Public
      Matlab Codes for PDCM
      MATLAB
      •0•3•0•0•Updated May 2, 2022May 2, 2022

    • girfISMRM2022

      Public
      Demonstration code for the GIRF abstract for ISMRM 2022
      MATLAB
      •
      MIT License
      •3•10•0•0•Updated Apr 30, 2022Apr 30, 2022

    • QSMxT

      Public
      Python
      •
      GNU General Public License v3.0
      •18•1•0•0•Updated Dec 20, 2021Dec 20, 2021

    • MP2RAGE-utils

      Public
      User-friendly MP2RAGE scripts with a single YAML input.
      MATLAB
      •
      GNU General Public License v3.0
      •2•1•0•0•Updated Oct 15, 2021Oct 15, 2021

    • gitdemo

      Public
      Git demonstration for BRAIN-To group
      Python
      •0•0•0•0•Updated Jun 11, 2020Jun 11, 2020

    • MRIReco.jl

      Public
      Julia Package for MRI Reconstruction
      Julia
      •
      Other
      •23•0•0•0•Updated May 5, 2020May 5, 2020

    • MIRT.jl

      Public
      MIRT: Michigan Image Reconstruction Toolbox (Julia version)
      Julia
      •
      MIT License
      •29•0•0•0•Updated Apr 26, 2020Apr 26, 2020

    • rrsg_challenge_01

      Public
      Consolidation of code from the RRSG challenge to reproduce Pruessmann's Non-Cartesian SENSE paper
      Jupyter Notebook
      •5•0•0•0•Updated Apr 23, 2020Apr 23, 2020

    • VAE-GAN-CelebA

      Public
      Code and notebooks related to the paper: "Reconstructing Faces from fMRI Patterns using Deep Generative Neural Networks" by VanRullen & Reddy, 2019
      Python
      •
      MIT License
      •25•0•0•0•Updated Feb 14, 2020Feb 14, 2020
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