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actflowtoolbox

The Brain Activity Flow ("Actflow") Toolbox. Tools to quantify the relationship between connectivity and task activity through network simulations and machine learning prediction. Helps determine how connections contribute to specific brain functions.

afq

Automated Fiber Quantification

applesiliconforneuroimaging

Review the challenges and potential of ARM-based Apple Silicon macOS for brain imaging research

brainsimageeval

Utility for raters to evaluate brainscans for quality control.

brainstools

A suite of tools for medical image processing focused on brain analysis

cbig

dcm2niix

dcm2nii DICOM to NIfTI converter: compiled versions available from NITRC

fid-a

Toolbox for simulation and processing of in-vivo magnetic resonance spectroscopy (MRS) data

freeroi

Software for ROI analysis in neuroimaging

freesurfer

Neuroimaging analysis and visualization suite

hcppipelines

Processing pipelines for the HCP

learning

To learn how to use GitHub

mrlanes

multibrain

A list of brain imaging datasets with multiple scans per subject. Feel free to update the list via 'pull requests'!

mypls

myPLS toolbox - PLS analysis for medical image processing

nbs-predict

A prediction-based extension of network-based statistics.

neuro-vis-brainhack-2021

openscienceroom2018

Schedule and resources from the OHBM Open Science Room: Singapore 2018

pattern_regression_clean

Codes for pattern regression with detailed manual

rbook

Source files for "Learning Statistics with R"

rtp-pipeline

Docker based Gear that runs the Reproducible Tract Profiles (RTP) pipeline

rtp-preproc

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

vistasoft

VISTASOFT is the main software repository of the VISTA lab at Stanford University.