77even/Fast-nnUNet

This is the official repository for Fast-nnUNet, a new fast model inference framework based on the nnUNet framework implementation, developed by the AI Lab of Xiaozhi Future (Chengdu) Tech Inc.

Language: Python - Size: 1.04 MB - Last synced at: 6 days ago - Pushed at: 6 days ago - Stars: 1 - Forks: 0

Macatools/macapype

PNH segmentation pipelines based on nipype

Language: Python - Size: 71.6 MB - Last synced at: 12 days ago - Pushed at: 12 days ago - Stars: 22 - Forks: 13

JIC1444/U-Net-Lumbar-Degeneration-Classification

Predicting lumbar degenerative conditions using the RSNA curated dataset.

Language: Jupyter Notebook - Size: 313 KB - Last synced at: 13 days ago - Pushed at: 13 days ago - Stars: 0 - Forks: 0

neuroneural/brainchop

Brainchop: In-browser 3D MRI rendering and segmentation

Language: JavaScript - Size: 363 MB - Last synced at: 9 days ago - Pushed at: about 1 month ago - Stars: 421 - Forks: 53

ChristianGaser/cat12

Computational Anatomy Toolbox for SPM12 or SPM25

Language: MATLAB - Size: 1.74 GB - Last synced at: 19 days ago - Pushed at: 19 days ago - Stars: 35 - Forks: 6

ChristianGaser/tfce

Threshold-free cluster enhancement toolbox for Matlab

Language: MATLAB - Size: 3.19 MB - Last synced at: 20 days ago - Pushed at: 20 days ago - Stars: 9 - Forks: 0

tayebiarasteh/picai-segmentation

Prostate cancer segmentation using multiparamteric MRI from Pi-CAI challenge dataset

Language: Python - Size: 34.2 KB - Last synced at: 12 days ago - Pushed at: 6 months ago - Stars: 4 - Forks: 0

d3v-26/grace-cli

Standalone tool for Grace model

Language: Python - Size: 51.8 KB - Last synced at: 24 days ago - Pushed at: 24 days ago - Stars: 0 - Forks: 0

LidiaGarrucho/MAMA-MIA

The MAMA-MIA Dataset: A Multi-Center Breast Cancer DCE-MRI Public Dataset with Expert Segmentations

Language: Jupyter Notebook - Size: 8.1 MB - Last synced at: 26 days ago - Pushed at: 26 days ago - Stars: 40 - Forks: 2

albertovalerio/brain-tumor-segmentation-with-explainability

The primary objective of this work is to develop an innovative system capable of providing explainable brain tumor detection.

Language: Jupyter Notebook - Size: 157 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 1 - Forks: 0

wwu-mmll/deepmriprep

Neural network-based MRI preprocessing: Prep 🧠 images in seconds 🔥

Language: Python - Size: 199 MB - Last synced at: about 1 month ago - Pushed at: 4 months ago - Stars: 31 - Forks: 0

Pituitary-Normal-Space/pituitary-segmentation-tool

This repository contains code that normalizes head MRIs segments the pituitary gland.

Language: Python - Size: 2.57 MB - Last synced at: 29 days ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0

tayebiarasteh/federated_he

Federated learning with homomorphic encryption enables multiple parties to securely co-train artificial intelligence models in pathology and radiology, reaching state-of-the-art performance with privacy guarantees.

Language: Python - Size: 585 KB - Last synced at: 12 days ago - Pushed at: over 1 year ago - Stars: 32 - Forks: 4

VictoorV/mri_segmentation

U-Net for MRI segmentation.

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yalda-zafari/StrokeSegmentation-DeepModels

Performance comparison of deep learning models for stroke lesion segmentation across ISLES 2022 and ATLAS v2.0.

Size: 4.13 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 1 - Forks: 0

ander-elkoroaristizabal/nnunet-ms-segmentation

This repository contains an adapatation of the nnU-Net code to the detection of new or evolving Multiple Sclerosis lesions in FLAIR Magnetic Resonance images.

Language: Jupyter Notebook - Size: 33.6 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 2 - Forks: 1

AHMEDSANA/Four-class-Brain-tumor-segmentation.

We segmented the Brain tumor using Brats dataset and as we know it is in 3D format we used the slicing method in which we slice the images in 2D form according to its 3 axis and then giving the model for training then combining waits to segment brain tumor. We used UNET model for training our dataset.

Language: Python - Size: 43 KB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 4 - Forks: 0

aghdamamir/3D-UNet

A pytorch implementation of 3D UNet for 3D MRI Segmentation.

Language: Python - Size: 173 KB - Last synced at: 6 months ago - Pushed at: about 3 years ago - Stars: 46 - Forks: 9

mansoor181/Deep-Feature-Ensemble-Based-BrainAGE

Language: Jupyter Notebook - Size: 11 MB - Last synced at: 4 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0

MIC-DKFZ/MedNeXt

[MICCAI 2023] MedNeXt is a fully ConvNeXt architecture for 3D medical image segmentation.

Language: Python - Size: 548 KB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 334 - Forks: 26

innoisys/ArachNet

Official Implementation of ARACHNET: INTERPRETABLE SUB-ARACHNOID SPACE SEGMENTATION USING AN ADDITIVE CONVOLUTIONAL NEURAL NETWORK

Language: Python - Size: 804 KB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 3 - Forks: 0

AyaAhmed01/Automated-analysis-of-myocardial-T1-mapping-images

Language: Jupyter Notebook - Size: 3.8 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0

PatimaDA/MRI

"MRI Fundamental" by KAIST University on Coursera.

Size: 5.86 KB - Last synced at: 9 months ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

Alessio1599/Brain-Tumor-MRI-segmentation

U-Net Brain Tumor Segmentation

Language: Python - Size: 28.3 KB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 0 - Forks: 0

AxDante/SAAMI

Automatic segment and generate masks for any 3D medical images using SAM model without prompt

Language: Python - Size: 12.5 MB - Last synced at: 5 months ago - Pushed at: about 2 years ago - Stars: 14 - Forks: 3

EdAlita/white_matter_hyperintensities_segmen

Automated White Matter Hyperintensities (WMH) segmentation using Dense U-Net for improved MRI analysis in neurodegenerative disease research

Language: Python - Size: 29 MB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0

Joelfischeer/Masterproject

Prostate MRI imaging data analysis

Language: Jupyter Notebook - Size: 1.58 MB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0

Mappo23/DL-DiReCT-v8

DL+DiReCT-v8 - Deep Learning-based Lesion-aware Brain Anatomy Segmentation and Parcellation Model

Language: Python - Size: 175 MB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0

iranamuneeb/Semantic-Segmentation-of-MRI

We used our own Generator to generate and Use images in our custom 3D-Unet model while converting our images into numpy arrays for faster & better results.

Language: Python - Size: 14.6 KB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0

dianavintila/Breast-Tumor-Segmentation

Medical Image processing project.

Language: MATLAB - Size: 23.5 MB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 1 - Forks: 0

MaruvarKuzhali/RFA-VR-Simulator

Virtual Reality Project for simulation Kidney RFA medical procedure

Size: 74.9 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

bartbols/SASHIMI

SASHIMI segmentation is a Matlab App for semi-automatic interactive segmentation of multi-slice images.

Language: MATLAB - Size: 23.3 MB - Last synced at: 12 months ago - Pushed at: over 3 years ago - Stars: 16 - Forks: 2

christiansassi/signal-image-and-video-project

Project developed by Pietro Bologna (@bolognapietro) and Christian Sassi for the Signal, Image and Video course.

Language: Python - Size: 150 MB - Last synced at: about 1 month ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 1

federicominniti/GastrointestinalMRISegmentation

Neural networks for Image Segmentation on MRI scans

Language: Jupyter Notebook - Size: 24 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 1

ubamba98/Brain-Segmentation

Brain Segmentation on MRBrains18

Language: Python - Size: 35.8 MB - Last synced at: 12 months ago - Pushed at: about 6 years ago - Stars: 45 - Forks: 15

agdamsbo/normalisation-pipeline

Normalising T1 weighted brain scans and lesions.

Language: HTML - Size: 2.83 MB - Last synced at: 5 days ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

EmanuelePravata/aVP-Toolbox

The aVP-Toolbox project proposes an innovative dedicated methodology to allow morphometric MRI analysis of the whole anterior visual pathway of the human brain.

Language: MATLAB - Size: 9.24 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

simonchemnitz/mri

Kaggle Competion MRI segmentation

Language: Python - Size: 14.6 KB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 0 - Forks: 0

Sanjay71013/ScanHippoHealth-Medical-MRI-Segmentation

ScanHippoHealth: MRI segmentation using 3D-Unet on Medical Segmentation Decathlon data. Flask app with secure authentication, predicting and displaying six slices of input MRI alongside masks for precise hippocampus segmentation. Contributions welcome to enhance medical image analysis for better diagnostics.

Language: Jupyter Notebook - Size: 88.5 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

LightersWang/3DUNet-BraTS-PyTorch

PyTorch 3D U-Net implementation for Multimodal Brain Tumor Segmentation (BraTS 2021)

Language: Python - Size: 76.2 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 39 - Forks: 5

shalabh147/Brain-Tumor-Segmentation-and-Survival-Prediction-using-Deep-Neural-Networks

Use of state of the art Convolutional neural network architectures including 3D UNet, 3D VNet and 2D UNets for Brain Tumor Segmentation and using segmented image features for Survival Prediction of patients through deep neural networks.

Language: Jupyter Notebook - Size: 282 MB - Last synced at: over 1 year ago - Pushed at: almost 5 years ago - Stars: 140 - Forks: 37

high-dimensional/tumour-seg

This is a repository hosting all models detailed in the article Brain tumour segmentation with incomplete imaging data.

Language: Python - Size: 4.36 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 2 - Forks: 2

volBrain/AssemblyNet

AssemblyNet: 3D Whole Brain MRI segmentation pipeline

Size: 53.4 MB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 34 - Forks: 6

eebrown/LST

Lesion Segmentation Tool by Paul Schmidt (https://www.applied-statistics.de/lst.html)

Language: MATLAB - Size: 21.9 MB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 2 - Forks: 1

makama-md/AI-for-Medical-Diagnosis

This repo contain my assignment notebooks for the Coursera AI for Medicine Specialization course. The link to the course: https://www.coursera.org/specializations/ai-for-medicine

Language: Jupyter Notebook - Size: 59.8 MB - Last synced at: over 1 year ago - Pushed at: almost 5 years ago - Stars: 57 - Forks: 43

raidionics/Raidionics-HF

🤗 HuggingFace space for Raidionics 🤗

Language: Python - Size: 15.6 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

ElliotY-ML/Hippocampus_Segmentation_MRI

Udacity AI for Healthcare Nanodegree Project: Measurement of Hippocampus Structure in MRI 3-D Images using Deep Learning Image Segmentation

Language: Jupyter Notebook - Size: 28.2 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 6 - Forks: 6

volBrain/DeeplesionBrain

Size: 1.95 KB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 6 - Forks: 0

MIMIR-BIOMEDICAL/mobile-unetplusplus-cac-scoring

Implementation of UNET++ for CAC Scoring using Tensorflow

Language: Jupyter Notebook - Size: 2.48 MB - Last synced at: about 1 year ago - Pushed at: almost 2 years ago - Stars: 5 - Forks: 2

sahikabetul/Hippocampal-Volume-Quantification-in-Alzheimer-s-Progression

🧠 3D MEDICAL IMAGE SEGMENTATION 🧠 FDA VALIDATION PLAN 🧠 Curate a dataset of brain MRIs, train a segmentation on a CNN, and integrate this into a clinical network to quantify hippocampal volume for Alzheimer's progression 🧠

Language: Jupyter Notebook - Size: 21.2 MB - Last synced at: almost 2 years ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0

673958639/Convolutional-Neural-Network-for-Brain-Lesion-Segmentation-in-MRI-Images

In this work, four popular deep convolutional neural networks (U-NET, DeepLab, FCN and SegNet) for image segmentation are constructed and compared. This comparison reveals the tradeoff between achieving effective segmentation and segmentation accuracy. Using deep learning, specifically convolutional neural network methods, to build and train models

Language: Jupyter Notebook - Size: 2.23 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 8 - Forks: 0

ev-h/segment-anything-mri

Segment Anything Model (SAM) applied to MRI

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as791/Multimodal-Brain-Tumor-Segmentation

Multimodal Brain Tumor Segmentation using BraTS 2018 Dataset.

Language: Jupyter Notebook - Size: 10.3 MB - Last synced at: almost 2 years ago - Pushed at: about 4 years ago - Stars: 41 - Forks: 15

sonal-bansal/Various-forms-of-Unet

Language: Jupyter Notebook - Size: 1.84 MB - Last synced at: almost 2 years ago - Pushed at: over 6 years ago - Stars: 2 - Forks: 2

himashi92/vizviva_fets_2022

Official PyTorch Code for Hybrid Window Attention Based Transformer Architecture for Brain Tumor Segmentation: Solution for FeTS 2022 Task 2

Language: Python - Size: 248 KB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 5 - Forks: 2

AKuzina/DWP

Pytorch implementation of the DWP with application to MRI segmentation

Language: Python - Size: 835 KB - Last synced at: 12 months ago - Pushed at: almost 5 years ago - Stars: 9 - Forks: 2

aksg87/adpkd-segmentation-pytorch

Segmentation of kidneys on MRI in Autosomal Dominant Polycystic Kidney

Language: Jupyter Notebook - Size: 53.7 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 10 - Forks: 6

SABS-R3-projects/Paint4Brains

A brain MRI segmentation tool that provides accurate robust segmentation of problematic brain regions across the neurodegenerative spectrum. The methodology is generalisable to perform well with the typical variance in MRI acquisition parameters and other factors that influence image contrast.

Language: Python - Size: 230 MB - Last synced at: about 2 years ago - Pushed at: over 4 years ago - Stars: 8 - Forks: 0

geekysethi/mri_segmentation

Language: Jupyter Notebook - Size: 678 KB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 1 - Forks: 1

shakex/recurrent-decoding-cell

[AAAI'20] Segmenting Medical MRI via Recurrent Decoding Cell (Spotlight)

Language: Python - Size: 123 MB - Last synced at: about 2 years ago - Pushed at: almost 3 years ago - Stars: 16 - Forks: 6

pimed/SPCNet

TensorFlow implementation of our paper: "Automated detection of aggressive and indolent prostate cancer on magnetic resonance imaging [Medical Physics 2021]".

Language: Python - Size: 1.84 MB - Last synced at: about 2 years ago - Pushed at: almost 4 years ago - Stars: 3 - Forks: 2

Mohamed-Hamdy/Brain-Tumor-segmentation

A deep learning application based on approach for brain tumor MRI segmentation.

Language: Python - Size: 36.1 MB - Last synced at: about 2 years ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

salmansust/AI-For-Medicine-Specialization

I have completed this specialization from Coursera by deeplearning.ai. I have uploaded the solutions of the assignments in this repo.

Language: Jupyter Notebook - Size: 2.68 MB - Last synced at: about 2 years ago - Pushed at: almost 5 years ago - Stars: 18 - Forks: 9

MalondaClement/aorta_analysis

Pipeline for semantic segmentation of MRI and aorta detection 🫀

Language: Python - Size: 30.3 KB - Last synced at: about 1 month ago - Pushed at: almost 3 years ago - Stars: 1 - Forks: 0

Deep-MI/FatSegNet

Deep CNN for Abdominal Adipose Tissue Segmentation on Dixon MRI

Language: Python - Size: 89.7 MB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 18 - Forks: 9

HongyuJiang/homeworks-from-universal

Solutions for assignments from several universities.

Language: Python - Size: 105 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 2

velpegor/Data_Capstone

자기공명영상을 이용한 딥러닝 기반 뇌종양 분할 및 성능 평가

Language: Jupyter Notebook - Size: 890 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 1

TUDelftHao/4DLongitudinal-MRI-Segmentation-Network

This is my Master thesis work at TU Delft, to longitudinally segment the MRI brain image series by 4D network.

Language: Python - Size: 1.08 MB - Last synced at: almost 2 years ago - Pushed at: almost 3 years ago - Stars: 4 - Forks: 1

OldBonhart/Brain_MRI_Segmentation

Medical image segmentation

Language: Jupyter Notebook - Size: 5.08 MB - Last synced at: about 2 years ago - Pushed at: about 5 years ago - Stars: 1 - Forks: 1

gabrielriqu3ti/GLIA-Net Fork of MeteorsHub/GLIA-Net

A segmentation network for intracranial aneurysm on TOF-MRA images using PyTorch

Language: Jupyter Notebook - Size: 20.7 MB - Last synced at: about 2 years ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 1

antoinedelplace/MRI-Segmentation

Magnetic Resonance Images segmentation by Deep Neural Networks (Master Thesis)

Language: Python - Size: 6.84 KB - Last synced at: about 2 years ago - Pushed at: over 5 years ago - Stars: 5 - Forks: 2

gogolB/Brain_Lesion_Segmetation

Project for UCSF 265

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morteza89/Brain-Tumor-Segmentation

In this project I'm going to segment Tumor in MRI brain Images with a UNET which is based on Keras. The dataset is available online on Kaggle, and the algorithm provided 99% accuracy with a validation loss of 0.11 in just 10 epochs.

Language: Python - Size: 15.6 KB - Last synced at: about 2 years ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0

trislett/ants_tbss

TBSS (FSL) implementation with ANTs and T1w registration to template

Language: Python - Size: 53.3 MB - Last synced at: over 1 year ago - Pushed at: almost 5 years ago - Stars: 2 - Forks: 2

Thehunk1206/MeSAI

This repository contains 3D-Unet Based segmentation models with different settings. I'll be comparing different models with different settings.

Language: Python - Size: 255 KB - Last synced at: about 2 years ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0

pradeepsen99/MultiNifti_to_png

Takes in multiple Nifti files with masks and converts them into training and validation datasets for use in AI/ML training

Language: Python - Size: 8.79 KB - Last synced at: about 2 years ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

mggardne/Matlab_geometry

Matlab code for analyzing MRI knee geometry

Language: MATLAB - Size: 85.9 KB - Last synced at: about 2 years ago - Pushed at: over 5 years ago - Stars: 1 - Forks: 1

Warvito/MRAI_workshop_tensorflow Fork of estherpuyol/MRAI_workshop

Tensorflow 2.0/Keras implementation of MR(A)I workshop material

Language: Jupyter Notebook - Size: 79 MB - Last synced at: about 2 years ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0