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nilearn /nilearn

Star1.3k

Machine learning for NeuroImaging in Python

python machine-learning decoding neuroimaging fmri brain-imaging brain-mri mvpa brain-connectivity

UpdatedMar 17, 2025
Python

nipreps /fmriprep

Star656

fMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse fMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.

image-processing neuroimaging fmri bids brain-imaging fmri-preprocessing

UpdatedMar 5, 2025
HTML

gallantlab /pycortex

Star618

Pycortex is a python-based toolkit for surface visualization of fMRI data

python neuroimaging fmri surface-visualization

UpdatedFeb 25, 2025
JavaScript

brainiak /brainiak

Star350

Brain Imaging Analysis Kit

machine-learning neuroscience distributed neuroimaging fmri

UpdatedJan 6, 2025
Python

translationalneuromodeling /tapas

Star230

TAPAS - Translational Algorithms for Psychiatry-Advancing Science

statistical-learning neuroscience eeg computational fmri bayesian-inference behavioral hierarchical-models psychiatry psychosomatics neurology

UpdatedMar 4, 2025
MATLAB

cwatson /brainGraph

Star188

Graph theory analysis of brain MRI data

r statistics neuroscience mri graph-theory neuroimaging complex-networks fmri network-analysis connectomics brain-imaging connectome brain-connectivity tractography

UpdatedFeb 20, 2024
R

A Python Toolbox for Multimode Neural Data Representation Analysis - A Representational Analysis Toolbox for Neuroscience, including Neural Pattern Similarity (NPS), Representational Similarity Analysis (RSA), Spatiotemporal Pattern Similarity (STPS) & Inter-Subject Correlation (ISC)

decoding rsa python-toolbox meg eeg isc classification nps electrophysiology fmri fnirs ecog neural-data representation-similarity seeg representational-analysis stps

UpdatedApr 11, 2024
Python

afni /afni

Star168

Official AFNI source and documentation

visualization quality-control statistics mri statistical-inference fmri dwi anatomical-mri fmri-data-analysis fmri-analysis

UpdatedMar 13, 2025
C

ME-ICA /tedana

Star166

TE-dependent analysis of multi-echo fMRI

python neuroimaging fmri brain-imaging

UpdatedMar 11, 2025
Python

canlab /CanlabCore

Star150

Core tools required for running Canlab Matlab toolboxes. The heart of this toolbox is object-oriented tools that enable interactive analysis of neuroimaging data and simple scripts using high-level commands tailored to neuroimaging analysis.

machine-learning matlab toolboxes neuroscience connectivity fmri mediation meta-analysis canlab

UpdatedMar 13, 2025
MATLAB

dPys /PyNets

Star123

A Reproducible Workflow for Structural and Functional Connectome Ensemble Learning

workflow optimization networkx ensemble-learning networks fmri decision-trees nilearn fuzzy-logic multiverse brain-connectivity tractography nipype dipy gridsearch graph-neural-networks dmri ensemble-sampling

UpdatedFeb 1, 2024
Python

cosanlab /nltools

Star121

Python toolbox for analyzing imaging data

python machine-learning python-toolbox toolbox multivariate fmri neuroimaging-data

UpdatedAug 1, 2024
Python

spm /spm

Star110

SPM (Statistical Parametric Mapping) - Development Version

mapping matlab neuroscience meg eeg vbm pet neuroimaging spm fmri nifti statistical brain parametric dcm opm spect

UpdatedFeb 22, 2025
MATLAB

NeuroVault /NeuroVault

Star104

Easy to use web database for statistical maps.

open-source django fmri brain-imaging statmaps cognitive-concepts

UpdatedMar 6, 2025
Python

makism /dyconnmap

Star103

A dynamic connectome mapping module in python.

python clustering dynamic graphs neuroscience meg eeg connectivity neuroimaging fmri graph-analysis connectome functional-connectivity time-varying fc-states graph-distances

UpdatedJul 24, 2023
Python

NSBLab /BrainEigenmodes

Star97

Code supporting 'Geometric constraints on human brain function'

modeling neuroscience computational-neuroscience fmri brain-imaging eigenmodes brain-function

UpdatedFeb 16, 2024
MATLAB

egyptdj /stagin

Star90

STAGIN: Spatio-Temporal Attention Graph Isomorphism Network

attention neuroimaging fmri connectome explainability neurips gnn graph-neural-network stagin neurips2021

UpdatedJul 16, 2023
Python

pelednoam /mmvt

Star89

The Multi-Modality Visualization Tool (MMVT) is built for researchers who wish to have a better understanding of their neuroimaging anatomical and spatio-temporal data

visualization meg fmri neuroimaging-data 3d-visualization multi-modality-visualization