brain-segmentation

There are 4 repositories under brain-segmentation topic.

ENHANCE-PET / MOOSE
MOOSE (Multi-organ objective segmentation) a data-centric AI solution that generates multilabel organ segmentations to facilitate systemic TB whole-person research.The pipeline is based on nn-UNet and has the capability to segment 120 unique tissue classes from a whole-body 18F-FDG PET/CT image.
pet-ct organ-segmentation nnunet 3d-segmentation bone-segmentation tb-pet brain-segmentation fat-segmentation muscle-segmentation psoas-segmentation ct-segmentation total-body-segmentation
Language:Python 267
quqixun / BrainPrep
Preprocessing pipeline on Brain MR Images through FSL and ANTs, including registration, skull-stripping, bias field correction, enhancement and segmentation.
brain mri preprocessing fsl registration skull-stripping brain-segmentation ants enhancement bias-field-correction
Language:Python 207
DeepBrainSeg
koriavinash1 / DeepBrainSeg
Fully automatic brain tumour segmentation using Deep 3-D convolutional neural networks
artificial-intelligence biomedical-image-analysis brain-segmentation brain-tumor brain-tumor-segmentation brats deep-convolutional-neural-networks deep-learning ensemble-learning medical-image-analysis segmentation
Language:Python 194
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 165
josedolz / HyperDenseNet
This repository contains the code of HyperDenseNet, a hyper-densely connected CNN to segment medical images in multi-modal image scenarios.
cnn fcn 3d-cnn convolutional-neural-networks hyperdensenet medical-image-processing segmentation image-segmentation deep-learning deep-neural-networks theano segment-medical-images 3d-convolutional-network deep-learning-algorithms brain-segmentation multi-modal-imaging densenet neural-networks medical-image-analysis medical-image-segmentation
Language:Python 150
MaciejMazurowski / brain-segmentation
Deep learning based skull stripping and FLAIR abnormality segmentation in brain MRI using U-Net
deep-learning brain-segmentation unet python mri-images keras trained-weights matlab dsc brain-mri skull-stripping
Language:Python 132
NYUMedML / DARTS
Code for DARTS: DenseUnet-based Automatic Rapid Tool for brain Segmentation
artificial-intelligence brain-mri brain-segmentation deep-learning freesurfer medical-imaging pytorch unet
Language:Jupyter Notebook 69
ai-med / QuickNATv2
Fast Whole Brain Segmentation (Layers, codes and Pre-trained Models)
brain-segmentation deep-learning neuroanatomy-toolbox neuroscience
Language:MATLAB 64
volBrain / AssemblyNet
AssemblyNet: 3D Whole Brain MRI segmentation pipeline
neuroscience neuroimaging brain-imaging medical-imaging deep-learning neuroanatomy brain-segmentation mri mri-segmentation nifti neurodegenerative-diseases dementia alzheimer parkinson schizophrenia autism docker
58
nipype-preprocess-on-brain-MR
NatLee / nipype-preprocess-on-brain-MR
The project is used to do preprocessing on brain MR images by using Nipype.
brain mri mr medical-image-processing skull-stripping fsl ants registration enhancement segmentation bias-field-correction pipeline brain-mri brain-imaging brain-segmentation acpc dockerfile nipype python
Language:Python 36
peirong26 / Brain-ID
[ECCV 2024] Brain-ID: Learning Contrast-agnostic Anatomical Representations for Brain Imaging
brain brain-segmentation data-simulation foundation-models mri representation-learning task-agnostic eccv2024 ct image-synthesis super-resolution
Language:Python 26
Macatools / macapype
PNH segmentation pipelines based on nipype
python nipype mri-segmentation primate afni ants spm12 fsl mri mri-analysis brain-extraction brain-segmentation mesh
Language:Python 22
shivangi-aneja / Multi-Modal-Brain-Segmentation
3D Multi-modal (FLAIR and T1) Brain MRI Scan Segmentation using Generative Adversarial Learning
3d-gan 3d-unet brain-segmentation adversarial-learning cnn segmentation semi-supervised-learning
Language:Python 20
AICONSlab / iCVMapp3r
AICONSlab's brain extraction (skull-stripping) algorithm using CNNs
medical-imaging cnn image-processing deep-learning neuroimaging mri brain-segmentation python3 neuroscience
Language:Python 18
AICONSlab / VentMapp3r
AICONSlab's ventricular segmentation technique using CNNs
brain-segmentation cnn deep-learning medical-imaging mri python3 ventricle
Language:Python 10
freesurfer / samseg
Sequence Adaptive Multimodal SEGmentation (SAMSEG)
brain-segmentation lesion-segmentation probabilistic-models
Language:C++ 10
vladzalevskyi / brain-segmentation
This repository contrains source code and the report for the Brain Segmentation challenge. It was the final assignment for the Medical Image Segmentation and Analysis course at the University of Girona for the MAIA programme.
brain-segmentation deep-learning maia python pytorch pytorch-lightning u-net
Language:Jupyter Notebook 5
leslie-zi-pan / WMH_Segmentation_ipynb
Brain white matter hyperintensity segmentation, with T1 and FLAIR MRI images, using UNet.
brain-segmentation deep-learning dementia dementia-diagnosis monai pytorch unet unet-pytorch white-matter-hyperintensities white-matter-segmentation
Language:Jupyter Notebook 4
CRazorback / OHSR
[MICCAI'23] "Learning Ontology-Based Hierarchical Structural Relationship for Whole Brain Segmentation".
brain-segmentation metric-learning
Language:Python 3
CSIM-Toolkits / Slicer-LesionSpotlightExtension
3D Slicer extension that provides T2-FLAIR MRI manipulation methods in order to increase contrast and segment hyperintense Multiple Sclerosis lesions
3d-slicer-extension brain brain-segmentation lesion-segmentation magnetic-resonance-imaging segmentation t1-weighted-mri t2-flair-mri
Language:Python 3
asyrofist / brain-segmen
This project shows a simple way to segment a brain MRI image
brain-segmentation cluster machine-learning morphology
Language:Jupyter Notebook 2
FelixGunzer / JCD_thesis
Radiological-anatomical distribution patterns of Jakob-Creutzfeldt disease in relation to functional cortical systems
aal brain-segmentation brodmann-area-labeling creutzfeldt jakob-creutzfeldt-disease mri mri-segmentation prions radiology spm12
1
aqntks / brain-seg
Brain Segmentation
brain-segmentation 3d-segmentation mri-images brats monai
Language:Python 0
CindyZJT / UMM-Net
brain-segmentation mri-volumes
Language:Python 0
CSIM-Toolkits / SlicerBrainVolumeRefinement
3D Slicer extension for the Brain Volume Refinement methods (BVeR)
3d-slicer-extension brain brain-segmentation magnetic-resonance-imaging brain-mask
Language:C++ 0
kolaszko / brain_segmentation
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deep-learning brain-segmentation skull-stripping unet unet-keras
Language:Python 0
musimab / Unet_brain_segmentation
unet brain segmentation with pytorch c++
brain-segmentation torchscript unet-pytorch
Language:C++ 0
davidj-brewster / hippocampus-morphology-segmentation
Very early pythonic attempt at hippocampus segmentation and detection using preprocessing, skull-stripping, then medpy and skimage morphology methods
brain-segmentation hippocampus mri python pytorch sklearn
Language:Python
SiyangJ / MacaqueSeg
Macaca Mulatta brain tissue segmentation project with prof. Martin Styner.
deep-learning cnn brain-segmentation medical-imaging macaque-brain