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A Python Toolbox for Multimode Neural Data Representation Analysis

Brain Coloring ⭐ 38

BrainPainter - Brain Visualisation Software

A framework for real-time brain signal streaming with MNE-Python.

Coleanticevicnetpartition ⭐ 37

Public release of The Cole-Anticevic Brain-wide Network Partition (CAB-NP)

Neuroimaging.jl ⭐ 37

Neuroimaging in Julia

Brainstat ⭐ 37

A statistics and context decoding toolbox for neuroimaging.

Threebrain ⭐ 37

3D Visualization of Brain MRI

Student version of NI-edu courses

Ecobidas ⭐ 35

Working repository to turn the COBIDAS guidelines to report methods and results in neuroimaging into a user friendly checklist

Confounds ⭐ 35

Conquering confounds and covariates in machine learning

Learning From Brains ⭐ 34

Self-supervised learning techniques for neuroimaging data inspired by prominent learning frameworks in natural language processing + One of the broadest neuroimaging datasets used for pre-training to date.

Nidm Specs ⭐ 34

Neuroimaging Data Model (NIDM): describing neuroimaging data and provenance

Python package for power mapping and functional connectivity using DICS

Probabilistic Threshold-Free Cluster Enhancement of Neuroimages

Nipype Beginner S Guide ⭐ 33

Beginner's guide for Nipype

2018_materials ⭐ 32

Materials for Neurohackademy 2018 lectures, tutorials, etc.

Cortex_old ⭐ 32

Cortex - Deep learning tools for neuroimaging

FSL-R Interface package

APPIAN is an open-source automated software pipeline for analyzing PET images in conjunction with MRI. The goal of APPIAN is to make PET tracer kinetic data analysis easy for users with moderate computing skills and to facilitate reproducible research.

Nifti Rs ⭐ 32

Rust implementation of the NIfTI-1 format

Assemblynet ⭐ 31

AssemblyNet: 3D Whole Brain MRI segmentation pipeline

Tools for analysis of brain imaging-derived networks, based on NetworkX

Tools for automatic extraction of activation coordinates from published neuroimaging articles.

Brainconn ⭐ 30

Brainconn - an R package for visualising brain connectivity data in 2D and interactive 3D

Vscode Neuro Viewer ⭐ 30

Check metadata and visualize neuroimages within VSCode.

Nirstorm ⭐ 30

Brainstorm plugin for fNIRS data analysis

Niftytorch.doc ⭐ 29

A Python API for deploying deep neural networks for Neuroimaging research. Powered by IMG at Stevens Neuroimaging and Informatics Institute, KSOM, USC.

Multi-modal Image Registration And Connectivity anaLysis

Actflowtoolbox ⭐ 29

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.

Please use the new version of LiFE: www.github.com/brain-life/encode

Subject-wise networks from structural MRI, both vertex- and voxel-wise features (thickness, GM density, curvature, gyrification)

A platform for analyzing neuroimaging data in Python

Hippmapp3r ⭐ 27

AICONSlab's hippocampal segmentation algorithm using CNNs

Sdcflows ⭐ 27

Susceptibility Distortion Correction (SDC) workflows for EPI MR schemes

Tfce_mediation ⭐ 27

Fast regression and mediation analysis of vertex or voxel MRI data with TFCE

Neuroquery ⭐ 27

Implementation of the neuroquery encoding model that powers neuroquery.org

Neuroglancer Scripts ⭐ 26

Conversion of neuroimaging data for display in Neuroglancer

Awesome Medical Imaging ⭐ 26

Awesome list of software that I use to do research in medical imaging.

Voxelviz ⭐ 26

Visualization tool for fMRI data-sets using Plotly Dash

Framework for the reproducible classification of Alzheimer's disease using machine learning

Webgl Brain Viewer ⭐ 25

Contains source code for the WebGL Brain Surface and Tractography Viewer developed at Children's Hospital Boston in the Fetal-Neonatal Neuroimaging and Development Science Center

Containers ⭐ 25

Containers "distribution" for reproducible neuroimaging

Reproman ⭐ 25

ReproMan (AKA NICEMAN, AKA ReproNim TRD3)

Bids Website ⭐ 25

Website for the Brain Imaging Data Structure standard.

Brainplotlib ⭐ 25

A lightweight package to plot brain surfaces with Python.

BRAPH 2.0 is a comprehensive software package for the analysis and visualization of brain connectivity data, offering flexible customization, rich visualization capabilities, and a platform for collaboration in neuroscience research.

Gradient_analysis ⭐ 24

Canonical ICA for fMRI

NeuroInformatics Database

Canlab_help_examples ⭐ 24

How-to examples and a batch pipeline for second-level neuroimaging analysis. Batch scripts and examples publish HTML files with code and output.

Pyradigm ⭐ 24

Research data management in biomedical and machine learning applications

GNU Octave library for connectivity analysis in large fMRI datasets

Online_neuroimaging_resources ⭐ 24

a laundry list of resources for MRI, fMRI, EEG, MEG...

MATLAB/Octave GIfTI Library

SC-GAN: 3D self-attention conditional GAN with spectral normalization for multi-modal neuroimaging synthesis

Brainlit ⭐ 23

Method container for computational neuroscience on brains.

Exercises for 2015 Berkeley practical neuroimaging class

An easy to use decoding toolbox for Matlab users.

Naturalistic_data_analysis ⭐ 22

A jupyter book for the OHBM educational workshop on analyzing naturalistic data.

Org Atlases ⭐ 21

ORG Fiber Clustering White Matter Atlas

medical image visualization library and development toolkit

Neuropointillist ⭐ 21

Flexible modeling of neuroimaging data in R

Brainmage ⭐ 20

Brain extraction in presence of abnormalities, using single and multiple MRI modalities

Easylearn_dev ⭐ 20

Easylearn is designed for machine learning mainly in resting-state fMRI, radiomics and other fields (such as EEG). Easylearn is built on top of scikit-learn, pytorch and other packages. Easylearn can assist doctors and researchers who have limited coding experience to easily realize machine learning, e.g., (MR/CT/PET/EEG)imaging-marker- or other biomarker-based disease diagnosis and prediction, treatment response prediction, disease subtyping, dimensional decoding for transdiagnostic psychiatri

Brainextractor ⭐ 20

A re-implementation of FSL's Brain Extraction Tool in Python

Sdc Bids Smri ⭐ 20

Structural Neuroimaging Analysis in Python

Neuroml2020 ⭐ 20

Machine Learning in Neuroimaging data, Fall 2020.

Neuroconda ⭐ 19

Conda environment for neuroimaging analysis in python, R, etc

School Brainhack.github.io ⭐ 19

Website of the BrainHack School

Python4mri ⭐ 19

Introduction to Python for neuroimaging (MRI) analysis

Brainverse ⭐ 19

BrainVerse is an electronic laboratory notebook built as an open-source, cross-platform desktop application to help researchers manage, track and share information in a comprehensive format.

Trained Models ⭐ 19

Trained TensorFlow models for 3D image processing

Sdc Bids Intromri ⭐ 19

Introduction to MRI and BIDS

Nibabies ⭐ 19

Processing tools for magnetic resonance images of infant brains

Nbs Predict ⭐ 19

A prediction-based extension of network-based statistics.

Frontiers2013 ⭐ 19

Paper for special issue "Python in Neurosciences II"

Workstation ⭐ 19

Janelia Workstation

Freesurferformats ⭐ 19

GNU R package for reading and writing neuroimaging file formats. Not limited to FreeSurfer anymore, despite its name.

Assorted utilities for neuroimaging and cognitive science

Openscienceroom2018 ⭐ 18

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

Set of tools for downloading and accessing open-license neuroimaging data in a consistent format.

Datalad Neuroimaging ⭐ 17

DataLad extension for neuroimaging research

A lightweight Docker container with a browser-accessible environment for reproducible neuroimaging analysis. Only the required software packages are downloaded from a public library (as Singularity containers).

Flow_registration ⭐ 17

Flow-Registration toolbox for 2P motion compensation

The MVGC Multivariate Granger Causality toolbox (Version 2) for Granger-causal inference from time-series data. CURRENTLY IN EARLY DEVELOPMENT - UNTESTED!

Acerta Abide ⭐ 17

Deep learning using the ABIDE data

Fast brain extraction using neural networks

Sdc Bids Dmri ⭐ 16

Introduction to dMRI

Openscienceroom2019 ⭐ 16

Schedule and resources from the OHBM Open Science Room: Rome 2019

Opensciencedemocalls ⭐ 16

A collection of resources for the Open Science Demo Calls

Curation of BIDS (CuBIDS): A sanity-preserving software package for processing BIDS datasets.

Deep neural network (DNN) with weight sparsity control (i.e., L1-norm regularization) improved the classification performance using whole-brain resting-state functional connectivity patterns of schizophrenia patient and healthy groups.

A web service for semi-automated conversion of raw imaging data to BIDS

Pipedream ⭐ 16

PipeDream - open source neuroimaging pipelines

Prime Re.github.io ⭐ 16

Open resource exchange platform for non-human primate neuroimaging

Spm Docs ⭐ 15

SPM Documentation

Text2brain ⭐ 15

Generating brain activation maps from free-form text query

NiGSP: a module for graph signal processing on neuroimaging data

Riksneurotools ⭐ 15

Rik Henson's neuroimaging analysis tools

Neuroparser ⭐ 15

Sparse and structured methods for supervised and unsupervised learning on large neuroimaging data

101-200 of 355 search results

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