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    32 repositories

    • nifti-montage

      Public
      Generate montage from NIfTI
      Python
      •1•0•0•0•Updated Jun 29, 2024Jun 29, 2024

    • mrtrix3preproc

      Public
      mrtrix3preproc runs the mrTrix3 preprocessing pipeline in the diffussion data. It uses FSLs topup when the optional inverted phase encoding files are found, oth…
      Shell
      •7•0•0•0•Updated Jun 29, 2024Jun 29, 2024

    • fsl-fast

      Public
      FMRIB's Automated Segmentation Tool
      Shell
      •2•2•0•0•Updated Jun 29, 2024Jun 29, 2024

    • fsl-bet

      Public
      FSL's Brain Extraction Tool (BET)
      Shell
      •2•1•0•0•Updated Jun 29, 2024Jun 29, 2024

    • gannet

      Public
      Gannet analysis of edited MRS data
      Shell
      •3•0•2•2•Updated Mar 14, 2024Mar 14, 2024

    • dtiinit

      Public
      Vistasoft (mrDiffusion) preprocessing pipeline for diffusion MR data
      Python
      •2•0•4•1•Updated Mar 14, 2024Mar 14, 2024

    • afni-brain-warp

      Public
      AFNI-based brain warping based on D99 Macaque Atlas warp scripts
      Shell
      •0•0•3•1•Updated Dec 16, 2022Dec 16, 2022

    • afq-pipeline-sdk

      Public
      AFQ Pipeline Gear using Flywheel SDK
      Python
      •0•0•0•0•Updated Dec 16, 2022Dec 16, 2022

    • qa-dtiprep

      Public
      dtiPrep quality assurance algorithm
      Python
      •
      Apache License 2.0
      •0•1•0•0•Updated Dec 16, 2022Dec 16, 2022

    • dti-error

      Public
      Calculate the RMSE between a tensor fit from dtiInit and the diffusion weighted imaging data
      MATLAB
      •
      Apache License 2.0
      •0•2•3•0•Updated Nov 23, 2021Nov 23, 2021

    • afq-pipeline

      Public
      Flywheel Gear that runs the AFQ processing pipeline
      MATLAB
      •9•2•1•0•Updated Sep 29, 2021Sep 29, 2021

    • dicom-mr-classifier

      Public archive
      Extract metadata from raw DICOM data from Siemens, Philips, or GE.
      Python
      •6•5•2•0•Updated Aug 2, 2021Aug 2, 2021

    • dcm2niix

      Public archive
      DICOM/PAR-REC conversion to nifti using Rorden's dcm2niix
      Shell
      •4•4•0•0•Updated Dec 15, 2020Dec 15, 2020

    • freesurfer-recon-all

      Public
      Performs all, or any part of, the FreeSurfer cortical reconstruction process.
      Shell
      •
      Other
      •4•1•0•1•Updated Oct 26, 2020Oct 26, 2020

    • mrq

      Public
      Flywheel Gear to execute mrQ from Mezer Lab
      MATLAB
      •0•0•1•0•Updated Sep 11, 2020Sep 11, 2020

    • parrec-mr-classifier

      Public
      Classification of par/rec MR data from Philips
      Python
      •0•0•0•1•Updated Apr 16, 2020Apr 16, 2020

    • dcm-convert

      Public
      SciTran DICOM Conversion Tool
      Python
      •2•0•4•0•Updated Jun 23, 2019Jun 23, 2019

    • PRF

      Public
      PRF analysis with the analyzePRF code
      MATLAB
      •
      MIT License
      •0•0•0•0•Updated May 21, 2019May 21, 2019

    • fslmerge

      Public
      Uses fslmerge from FSL to merge datasets
      Shell
      •0•0•0•0•Updated Oct 17, 2018Oct 17, 2018

    • fsl-eddy

      Public
      Run FSL's Eddy tool
      0•0•0•0•Updated Sep 21, 2018Sep 21, 2018

    • dcm2nii

      Public
      DICOM/PAR-REC conversion to nifti using Rorden's dcm2nii (v.4AUG14)
      Shell
      •0•0•0•0•Updated Jun 16, 2018Jun 16, 2018

    • afq-browser

      Public
      Gear to generate files for afq browser
      Python
      •0•0•0•0•Updated Jun 14, 2018Jun 14, 2018

    • dwi-split-shells

      Public
      Split mutlti-shell dwi data into individual shells
      MATLAB
      •
      MIT License
      •0•0•0•0•Updated May 23, 2018May 23, 2018

    • pyafq

      Public
      Python implementation of AFQ
      1•0•0•0•Updated May 14, 2018May 14, 2018

    • dwi-norm-flip

      Public
      Normalize DWI data
      0•0•0•0•Updated May 7, 2018May 7, 2018

    • retinotopy-templates

      Public
      Applies the retinotopy templates from Benson et al. (2014) PLOS Comput Biol to a FreeSurfer subject output.
      Shell
      •
      Other
      •0•2•4•0•Updated Jun 20, 2017Jun 20, 2017

    • afni-brain-coreg

      Public
      Co-Register a functional to an anatomical.
      Python
      •0•0•0•1•Updated Apr 12, 2017Apr 12, 2017

    • apply-canonical-xform

      Public
      Reorient NIfTI data and metadata fields into RAS space
      Shell
      •0•1•0•0•Updated Dec 14, 2016Dec 14, 2016

    • spm8-mcr-v713

      Public
      SPM8 with MATLAB MCR 2010a
      2•1•0•0•Updated Nov 5, 2016Nov 5, 2016

    • hdft-subsampled-recon

      Public
      Computes a transformation of multi-shell diffusion weighted data to a set of Spherical Harmonic coefficients and outputs 4D Spherical Harmonic coefficient data.…
      Python
      •0•0•0•0•Updated Nov 4, 2016Nov 4, 2016
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