Medical Image Segmentation Computer Vision Tools

There are 42 medical image segmentation tools tracked. 3 score above 50 (established tier). The highest-rated is aelefebv/nellie at 59/100 with 90 stars.

Get all 42 projects as JSON

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#	Tool	Score	Tier	Stars	Language
1	aelefebv/nellie Nellie: Automated organelle segmentation, tracking, and hierarchical...	59	Established	90	Python
2	GewelsJI/VPS Official website for "Video Polyp Segmentation: A Deep Learning Perspective...	51	Established	214	Python
3	MIC-DKFZ/medicaldetectiontoolkit The Medical Detection Toolkit contains 2D + 3D implementations of prevalent...	51	Established	1,349	Python
4	mahmoodlab/HIPT Hierarchical Image Pyramid Transformer - CVPR 2022 (Oral)	49	Emerging	615	Jupyter Notebook
5	SerdarHelli/Segmentation-of-Teeth-in-Panoramic-X-ray-Image-Using-U-Net The aim of this study is automatic semantic segmentation in one-shot...	47	Emerging	163	Jupyter Notebook
6	gaudot/SlicerDentalSegmentator 3D Slicer extension for fully-automatic segmentation of CT and CBCT dental volumes.	46	Emerging	148	Python
7	ternaus/angiodysplasia-segmentation Wining solution and its further development for MICCAI 2017 Endoscopic...	45	Emerging	80	Jupyter Notebook
8	PaddleCV-SIG/MedicalSeg MedicalSeg is an easy-to-use 3D medical image segmentation toolkit that...	42	Emerging	81	Python
9	iBrain-Lab/MedNet-PVS Fully automated 3D perivascular space (PVS) segmentation tool for T1w and...	41	Emerging	12	Python
10	yilmaz0734/BrainCTImageStrokeDetection-Segmentation This project firstly aims to classify brain CT images using convolutional...	39	Emerging	26	Jupyter Notebook
11	Cardio-AI/cmr-landmark-detection Semantic Segmentation of CMR with a U-Net based architecture. Implemented in...	34	Emerging	6	Jupyter Notebook
12	DebeshJha/ColonSegNet Official implementation of ColonSegNet: Real-Time Polyp Segmentation (Used...	34	Emerging	54	Python
13	alejandro-matos/SlicerUpperAirwaySegmentator 3D Slicer extension for fully automatic segmentation of the upper airway...	34	Emerging	2	Python
14	TimScherr/KIT-GE-3-Cell-Segmentation-for-CTC Distance-transform-prediction-based segmentation method used for our...	33	Emerging	8	Jupyter Notebook
15	MohamedAlaouiMhamdi/3D_teeth_segmentation 3D Teeth Segmentation using PointNet is an advanced deep learning project...	32	Emerging	5	Jupyter Notebook
16	Limingxing00/Retinal-Vessel-Segmentation-ISBI2022 Accepted by ISBI 2022	32	Emerging	42	Python
17	ardhigagan/Optic-Disc-Detection A comparative study of deep learning (U-Net) and unsupervised computer...	29	Experimental	1	Python
18	kirkegaardlab/deeptangle [Comms Bio 2023] Official Code for Fast Detection of Slender Bodies in High...	29	Experimental	40	Python
19	TimKong21/Polyp-Segmentation Polyp segmentation tool utilizing U-Net for accurate medical image analysis,...	29	Experimental	11	Jupyter Notebook
20	YangTuanAnh/UNet-HoVerGNN UNet-HoVerGNN: Structured Graph Integration into HoVerNet for Enhanced...	28	Experimental	17	Jupyter Notebook
21	bupt-ai-cz/CAC-UNet-DigestPath2019 1st to MICCAI DigestPath2019 challenge...	28	Experimental	100	Python
22	DebeshJha/Kvasircapsule-SEG NanoNet: Real-Time Polyp Segmentation in Capsule Endoscopy & Colonoscopy...	27	Experimental	7	—
23	KibromBerihu/MIPsegmentatorV1 A 3D lesion segmentation method on whole-body PET images including automated...	27	Experimental	12	—
24	Maxlo24/ALI_CBCT Automatic landmark identification in CBCT scans	25	Experimental	37	Python
25	IPMI-ICNS-UKE/4d-cbct-mc Monte Carlo simulation of (4D) cone beam computed tomography	25	Experimental	11	C
26	sawsanowa/LL3rdM-Segmentation-Detection-Extraction Using deep learning a U-net architecture is used to make segmentation,...	25	Experimental	7	Jupyter Notebook
27	DebeshJha/Kvasir-SEG Kvasir-SEG: A Segmented Polyp Dataset	23	Experimental	16	—
28	Zoha-Arif/DeepMReye_Validation BrainHack Vanderbilt 2025: A validation project for DeepMReye, a...	23	Experimental	3	—
29	yu4u/kaggle-czii-4th This is the implementation of the 4th place solution (yu4u's part) for CZII...	22	Experimental	16	Python
30	ned0624/Retinal-Vessel-Segmentation DRIVE Digital Retinal Images for Vessel Extraction	21	Experimental	—	Jupyter Notebook
31	OMFSdigital/Cyto-R-CNN Source code for the paper "Cyto R-CNN and CytoNuke Dataset: Towards reliable...	20	Experimental	5	Python
32	phkhanhtrinh23/vessel_segmentation MultiResDenseUNet (SVOISP-2021-KH&KTMT-125) - Winner (3rd Prize) of The 10th...	19	Experimental	16	Jupyter Notebook
33	jrodriguezortega/CHaRM Code to reproduce all the experiments in the paper "CHaRM: Conditioned...	18	Experimental	1	—
34	tayfurertas/vlm3d_project VLM3D-Efficient-Pipeline: Weakly Supervised Disease Localization with Transformers	17	Experimental	—	Python
35	WestCoastGod/Carotid-Artery-Segmentation-with-nnU-Net This project uses nnU-Net to automatically segment carotid arteries from 2D...	16	Experimental	3	Python
36	Toliol/mu-net-polyp-segmentation 🔍 Enhance polyp detection in colonoscopy with μ-Net, a robust architecture...	14	Experimental	—	—
37	dlepre01/Semi-Automatic-Pipeline-for-Muscle-Cell-Segmentation-and-Quantitative-Index-Computation Semi-automatic deep learning pipeline for nuclei detection, muscle fibre...	13	Experimental	—	—
38	motasemwed/eyetech-liver-segmentation Deep learning system for automatic liver & tumor segmentation from CT scans...	13	Experimental	—	Jupyter Notebook
39	EbrahimBidokh/Enhancing-WCE_images Enhancing Wireless Capsule Endoscopy images from intense illumination...	12	Experimental	5	Python
40	Adhoc123/mu-net-polyp-segmentation First-author MDPI Diagnostics (2025) paper on colorectal polyp segmentation...	12	Experimental	1	—
41	SajjadHm/Fetal-Head-Segmentation Fetal Head Segmentation in Ultrasound Images via Deep Learning and Classical Methods	11	Experimental	—	Jupyter Notebook
42	an-eve/FH-PS-AOP-2023-segmentation-challenge MICCAI Challenge 2023: Pubic Symphysis-Fetal Head Segmentation task solved...	11	Experimental	4	Jupyter Notebook

Comparisons in this category

SlicerDentalSegmentator and SlicerUpperAirwaySegmentator (46 vs 34)