neuroimaging

There are 40 repositories under neuroimaging topic.

mne-python
mne-tools / mne-python
MNE: Magnetoencephalography (MEG) and Electroencephalography (EEG) in Python
python neuroscience electroencephalography magnetoencephalography electrocorticography machine-learning statistics visualization eeg meg ecog neuroimaging
Language:Python 2566
nitrain / nitrain
Train AI models efficiently on medical images using any framework
deep-learning keras medical-imaging neuroimaging pytorch
Language:Python 1848
Slicer / Slicer
Multi-platform, free open source software for visualization and image computing.
medical-imaging vtk itk python qt image-processing national-institutes-of-health medical-image-computing neuroimaging tractography image-guided-therapy registration segmentation 3d-printing nih 3d-slicer tcia-dac kitware c-plus-plus computed-tomography
Language:C++ 1495
DLTK / DLTK
Deep Learning Toolkit for Medical Image Analysis
cnn data-science deep-learning deep-neural-networks dltk dltk-model-zoo machine-learning medical medical-image-processing medical-imaging ml neural-network neural-networks neuroimaging python tensorflow
Language:Python 1421
ANTsX / ANTs
Advanced Normalization Tools (ANTs)
image-registration image-segmentation medical-image-processing neuroimaging
Language:C++ 1127
nilearn / nilearn
Machine learning for NeuroImaging in Python
python machine-learning fmri neuroimaging mvpa decoding brain-connectivity brain-imaging brain-mri
Language:Python 1112
Slicer / SlicerGitSVNArchive
:warning: OBSOLETE | Multi-platform, free open source software for visualization and image computing.
medical-imaging vtk itk python qt image-processing national-institutes-of-health cross-platform medical-image-computing neuroimaging tractography image-guided-therapy registration segmentation 3d-printing nih 3d-slicer tcia-dac kitware c-plus-plus
Language:C++ 874
rordenlab / dcm2niix
dcm2nii DICOM to NIfTI converter: compiled versions available from NITRC
dicom nifti mri mri-images research neuroscience neuroimaging jpeg-image jpeg dicom-images dcm nii gz nitrc dcm2niix mricrogl bids-format nifti-format
Language:C++ 812
fieldtrip / fieldtrip
The MATLAB toolbox for MEG, EEG and iEEG analysis
meg eeg ecog analysis matlab dipole beamformer statistics time-frequency connectivity brain neuroscience neuroimaging bids fieldtrip donders seeg ieeg
Language:MATLAB 810
nipy / nipype
Workflows and interfaces for neuroimaging packages
python workflow-engine brain-imaging big-data dataflow data-science dataflow-programming neuroimaging brainweb
Language:Python 735
braindecode / braindecode
Deep learning software to decode EEG, ECG or MEG signals
deep-learning eeg electroencephalogram electroencephalography neuroimaging neuroscience python pytorch meg magnetoencephalography electrocorticography ecog
Language:Python 717
dipy / dipy
DIPY is the paragon 3D/4D+ imaging library in Python. Contains generic methods for spatial normalization, signal processing, machine learning, statistical analysis and visualization of medical images. Additionally, it contains specialized methods for computational anatomy including diffusion, perfusion and structural imaging.
diffusion-mri dti tractography tractometry registration denoising spherical-harmonics dki tracking contextual-enhancement neuroanatomy neuroimaging medical-imaging microstructure machine-learning python bundles segmentation patch2self self-supervised-learning
Language:Python 675
nipy / nibabel
Python package to access a cacophony of neuro-imaging file formats
python neuroimaging brain-imaging nifti gifti cifti-2 streamlines data-formats dicom tck trk afni-brik-head ecat minc
Language:Python 629
nipreps / fmriprep
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.
fmri fmri-preprocessing brain-imaging neuroimaging bids image-processing
Language:HTML 609
gallantlab / pycortex
Pycortex is a python-based toolkit for surface visualization of fMRI data
fmri surface-visualization python neuroimaging
Language:JavaScript 556
freesurfer / freesurfer
Neuroimaging analysis and visualization suite
freesurfer neuroimaging mri lcn
Language:C++ 545
brainiak / brainiak
Brain Imaging Analysis Kit
neuroscience fmri machine-learning distributed neuroimaging
Language:Python 323
jcreinhold / intensity-normalization
normalize the intensities of various MR image modalities
mri neuroimaging normalization intensity-normalization ravel fcm whitestripe standardization harmonization zscore
Language:Python 297
nipreps / mriqc
Automated Quality Control and visual reports for Quality Assessment of structural (T1w, T2w) and functional MRI of the brain
mri quality-control quality-reporter machine-learning neuroimaging
Language:Python 283
bids-standard / bids-specification
Brain Imaging Data Structure (BIDS) Specification
bids neuroimaging data-standards standards
Language:Python 256
Neuromorphic-Computing-Guide
mikeroyal / Neuromorphic-Computing-Guide
Learn about the Neumorphic engineering process of creating large-scale integration (VLSI) systems containing electronic analog circuits to mimic neuro-biological architectures.
neuromorphic-computing neuromorphic-hardware neuromorphic-engineering neuromorphic neural-networks neural-engine neural-engineering neural-network neuronal-network neural-machine-translation neuron-models neural-processes neural-simulators neuroscience neural-rendering neocortex artificial-neural-networks brain-imaging neuroimaging neural-radiance-fields
Language:Python 255
brainchop
neuroneural / brainchop
Brainchop: In-browser 3D MRI rendering and segmentation
deep-learning 3d-segmentation frontend-app javascript neuroimaging pyodide tensorflowjs three-js medical-imaging mri mri-segmentation
Language:Jupyter Notebook 238
netneurolab / neuromaps
A toolbox for comparing brain maps
brain-imaging hacktoberfest neuroimaging python
Language:Python 217
clinica
aramis-lab / clinica
Software platform for clinical neuroimaging studies
neuroimaging python machine-learning brainweb bids-format ants freesurfer fsl mrtrix3 spm scikit-learn neuroscience
Language:Python 214
bids-standard / bids-validator
Validator for the Brain Imaging Data Structure
bids neuroimaging data-validation
Language:JavaScript 177
neurostuff / NiMARE
Coordinate- and image-based meta-analysis in Python
meta-analysis python neuroimaging
Language:Python 172
cwatson / brainGraph
Graph theory analysis of brain MRI data
graph-theory network-analysis neuroscience neuroimaging mri r statistics brain-connectivity connectome complex-networks brain-imaging connectomics tractography fmri
Language:R 163
josedolz / LiviaNET
This repository contains the code of LiviaNET, a 3D fully convolutional neural network that was employed in our work: "3D fully convolutional networks for subcortical segmentation in MRI: A large-scale study"
cnn convolutional-neural-networks image-segmentation deep-learning medical-imaging 3d-convolutional-network 3d-cnn medical-image-processing convolutional-networks theano mri neural-networks neuroimage neuroimaging deep-learning-algorithms deep-neural-networks brain-segmentation medical-image-segmentation medical-image-analysis
Language:Python 161
tedana
ME-ICA / tedana
TE-dependent analysis of multi-echo fMRI
python fmri neuroimaging brain-imaging
Language:Python 157
bids-standard / bids-examples
A set of BIDS compatible datasets with empty raw data files that can be used for writing lightweight software tests.
bids dataset data-standards standards neuroimaging
Language:MATLAB 156
clinicadl
aramis-lab / clinicadl
Framework for the reproducible processing of neuroimaging data with deep learning methods
python alzheimer-disease deep-learning pytorch neuroimaging convolutional-neural-network medical-imaging brain-imaging
Language:Python 152
UNFmontreal / Dcm2Bids
Reorganising NIfTI files from dcm2niix into the Brain Imaging Data Structure
neuroscience neuroimaging bids
Language:Python 151
alxndrkalinin / awesome-deepneuroimage
A curated list of awesome deep learning applications in the field of neurological image analysis
deep-learning neurological-image-analysis neuroimaging deep-neural-networks
148
neuronets / nobrainer
A framework for developing neural network models for 3D image processing.
medical-imaging semantic-segmentation tensorflow neuroimaging machine-learning
Language:Python 148
aces / Loris
LORIS is a web-accessible database solution for longitudinal multi-site studies.
loris neuroinformatics neuroimaging database data-sharing science hacktoberfest
Language:PHP 137
spm / spm12
Public Releases of SPM12 - see https://github.com/spm/spm for the Development Version
spm matlab spm12 neuroimaging
Language:MATLAB 128