Semi-supervised-learning-for-medical-image-segmentation.

• [New] We have transferred to a new topic about active learning and source-free domain adaptation for medical image analysis, which may be closer to the real clinical requirement. The new benchmark is here.

• We are reformatting the codebase to support the 5-fold cross-validation and randomly select labeled cases, the reformatted methods in this Branch.

• Recently, semi-supervised image segmentation has become a hot topic in medical image computing, unfortunately, there are only a few open-source codes and datasets, since the privacy policy and others. For easy evaluation and fair comparison, we are trying to build a semi-supervised medical image segmentation benchmark to boost the semi-supervised learning research in the medical image computing community. If you are interested, you can push your implementations or ideas to this repo or contact me at any time.

• This repo has re-implemented these semi-supervised methods (with some modifications for semi-supervised medical image segmentation, more details please refer to these original works): (1) Mean Teacher; (2) Entropy Minimization; (3) Deep Adversarial Networks; (4) Uncertainty Aware Mean Teacher; (5) Interpolation Consistency Training; (6) Uncertainty Rectified Pyramid Consistency; (7) Cross Pseudo Supervision; (8) Cross Consistency Training; (9) Deep Co-Training; (10) Cross Teaching between CNN and Transformer; (11) FixMatch; (12) Regularized Dropout. In addition, several backbones networks (both 2D and 3D) are also supported in this repo, such as UNet, nnUNet, VNet, AttentionUNet, ENet, Swin-UNet, etc.

• This project was originally developed for our previous works. Now and future, we are still working on extending it to be more user-friendly and support more approaches to further boost and ease this topic research. If you use this codebase in your research, please cite the following works:

    @article{media2022urpc,
    title={Semi-Supervised Medical Image Segmentation via Uncertainty Rectified Pyramid Consistency},
    author={Luo, Xiangde and Wang, Guotai and Liao, Wenjun and Chen, Jieneng and Song, Tao and Chen, Yinan and Zhang, Shichuan, Dimitris N. Metaxas, and Zhang, Shaoting},
    journal={Medical Image Analysis},
    volume={80},
    pages={102517},
    year={2022},
    publisher={Elsevier}}
    
    @inproceedings{luo2021ctbct,
    title={Semi-supervised medical image segmentation via cross teaching between cnn and transformer},
    author={Luo, Xiangde and Hu, Minhao and Song, Tao and Wang, Guotai and Zhang, Shaoting},
    booktitle={International Conference on Medical Imaging with Deep Learning},
    pages={820--833},
    year={2022},
    organization={PMLR}}
  
    @InProceedings{luo2021urpc,
    author={Luo, Xiangde and Liao, Wenjun and Chen, Jieneng and Song, Tao and Chen, Yinan and Zhang, Shichuan and Chen, Nianyong and Wang, Guotai and Zhang, Shaoting},
    title={Efficient Semi-supervised Gross Target Volume of Nasopharyngeal Carcinoma Segmentation via Uncertainty Rectified Pyramid Consistency},
    booktitle={Medical Image Computing and Computer Assisted Intervention -- MICCAI 2021},
    year={2021},
    pages={318--329}}
     
    @InProceedings{luo2021dtc,
    title={Semi-supervised Medical Image Segmentation through Dual-task Consistency},
    author={Luo, Xiangde and Chen, Jieneng and Song, Tao and  Wang, Guotai},
    journal={AAAI Conference on Artificial Intelligence},
    year={2021},
    pages={8801-8809}}
    
    @misc{ssl4mis2020,
    title={{SSL4MIS}},
    author={Luo, Xiangde},
    howpublished={\url{https://github.com/HiLab-git/SSL4MIS}},
    year={2020}}
  

Literature reviews of semi-supervised learning approach for medical image segmentation (SSL4MIS).

Date	The First and Last Authors	Title	Code	Reference
2023-07	H. Wang and X. Li	DHC: Dual-debiased Heterogeneous Co-training Framework for Class-imbalanced Semi-supervised Medical Image Segmentation	Code	MICCAI2023
2023-07	Q. Wei and Y. Zhou	Consistency-guided Meta-Learning for Bootstrapping Semi-Supervised Medical Image Segmentation	Code	MICCAI2023
2023-07	H. Peiris and M. Harandi	Uncertainty-guided dual-views for semi-supervised volumetric medical image segmentation	Code	Nature Machine Intelligence
2023-07	S. Gao and S. Zhang	Correlation-Aware Mutual Learning for Semi-supervised Medical Image Segmentation	Code	MICCAI2023
2023-07	Z. Xu and R. Tong	Ambiguity-selective consistency regularization for mean-teacher semi-supervised medical image segmentation	Code	MedIA2023
2023-06	P. Liu and G. Zheng	C3PS: Context-aware Conditional Cross Pseudo Supervision for Semi-supervised Medical Image Segmentation	None	Arxiv
2023-05	Z. Zhang and Z. Jiao	Cross-supervised Dual Classifiers for Semi-supervised Medical Image Segmentation	None	Arxiv
2023-05	Z. Zhang and Z. Jiao	Self-aware and Cross-sample Prototypical Learning for Semi-supervised Medical Image Segmentation	None	MICCAI2023
2023-05	H. Cai and Y. Gao	Orthogonal Annotation Benefits Barely-supervised Medical Image Segmentation	Code	CVPR2023
2023-05	H. Basak and Z. yin	Pseudo-Label Guided Contrastive Learning for Semi-Supervised Medical Image Segmentation	Code	CVPR2023
2023-05	Y. Wang and X. Gao	MCF: Mutual Correction Framework for Semi-Supervised Medical Image Segmentation	Code	CVPR2023
2023-05	L. Zhong and G. Wang	Semi-supervised Pathological Image Segmentation via Cross Distillation of Multiple Attentions	Code	MICCAI2023
2023-05	J. Du and T. Wang	Coarse-Refined Consistency Learning using Pixel-level Features for Semi-supervised Medical Image Segmentation	None	JBHI2023
2023-05	L. Qiu and H. Ren	Federated Semi-Supervised Learning for Medical Image Segmentation via Pseudo-Label Denoising	None	JBHI2023
2023-05	R. Aralikatti and J. Rajan	A Dual-Stage Semi-Supervised Pre-Training Approach for Medical Image Segmentation	Code	TAI2023
2023-05	Y. Zhao and J. Lu	Semi-Supervised Medical Image Segmentation With Voxel Stability and Reliability Constraints	Code	JBHI2023
2023-05	M. Xu and J. Jacob	Expectation Maximization Pseudo Labelling for Segmentation with Limited Annotations	Code	Arxiv
2023-05	Y. Bai and Y. Wang	Bidirectional Copy-Paste for Semi-Supervised Medical Image Segmentation	Code	CVPR2023
2023-04	H. Wu and K. Cheng	Compete to Win: Enhancing Pseudo Labels for Barely-supervised Medical Image Segmentation	Code	Arixv
2023-04	A. Lou and J. Noble	Min-Max Similarity: A Contrastive Semi-Supervised Deep Learning Network for Surgical Tools Segmentation	Code	TMI2023
2023-04	C.You and J. Duncan	ACTION++: Improving Semi-supervised Medical Image Segmentation with Adaptive Anatomical Contrast	None	Arxiv
2023-03	Y. Zhu and R. Zhang	Inherent Consistent Learning for Accurate Semi-supervised Medical Image Segmentation	Code	MIDL2023
2023-03	C. Xu and S. Zhao	Dual Uncertainty-guided Mixing Consistency for Semi-Supervised 3D Medical Image Segmentation	Code	TBD2023
2023-03	K. Chaitanya and E. Konukoglu	Local contrastive loss with pseudo-label based self-training for semi-supervised medical image segmentation	Code	MedIA2023
2023-03	J. Zhu and E. Meijering	Hybrid Dual Mean-Teacher Network With Double-Uncertainty Guidance for Semi-Supervised Segmentation of MRI Scans	Code	Arxiv
2023-02	P. Wang and C. Desrosiers	CAT: Constrained Adversarial Training for Anatomically-plausible Semi-supervised Segmentation	Code	TMI2023
2023-02	C. You and J. Duncan	Rethinking Semi-Supervised Medical Image Segmentation: A Variance-Reduction Perspective	None	Arxiv
2023-02	L. Zeng and W. Wang	SS-TBN: A Semi-Supervised Tri-Branch Network for COVID-19 Screening and Lesion Segmentation	None	TPAMI2023
2023-01	X. Zhao and L. Zhang	RCPS: Rectified Contrastive Pseudo Supervision for Semi-Supervised Medical Image Segmentation	Code	Arxiv
2023-01	Z. Shen and O. Zaiane	Co-training with High-Confidence Pseudo Labels for Semi-supervised Medical Image Segmentation	Code	Arxiv
2023-01	D. Chen and Y. Wang	MagicNet: Semi-Supervised Multi-Organ Segmentation via Magic-Cube Partition and Recovery	None	CVPR2023
2022-12	P. Qiao and J. Chen	Semi-supervised CT Lesion Segmentation Using Uncertainty-based Data Pairing and SwapMix	None	TMI2022
2022-12	Z. Wang and Z. Ni	Adversarial Vision Transformer for Medical Image Semantic Segmentation with Limited Annotations	Code	BMVC2022
2022-12	T. Lei and A. Nandi	Semi-supervised medical image segmentation using adversarial consistency learning and dynamic convolution network	Code	TMI2022
2022-11	L. Wang and P. Heng	Dual Multi-scale Mean Teacher Network for Semi-supervised Infection Segmentation in Chest CT Volume for COVID-19	Code	TCYB2022
2022-10	H. Ni and X. Huang	Semi-supervised Body Parsing and Pose Estimation for Enhancing Infant General Movement Assessment	None	MedIA2023
2022-10	F. Fyu and P. Yuen	Pseudo-Label Guided Image Synthesis for Semi-Supervised COVID-19 Pneumonia Infection Segmentation	Code	TMI2022
2022-10	J. Shi and C. Li	Semi-Supervised Pixel Contrastive Learning Framework for Tissue Segmentation in Histopathological Image	None	JBHI2022
2022-10	C. Xu and S. Li	BMAnet: Boundary Mining with Adversarial Learning for Semi-supervised 2D Myocardial Infarction Segmentation	None	JBHI2022
2022-10	D. Xiang and B. Tian	Semi-supervised Dual Stream Segmentation Network for Fundus Lesion Segmentation	None	TMI2022
2022-10	F. Wu and X. Zhuang	Minimizing Estimated Risks on Unlabeled Data: A New Formulation for Semi-Supervised Medical Image Segmentation	Code	TPAMI2022
2022-10	S. Zhang and Z. Xu	Multi-modal contrastive mutual learning and pseudo-label re-learning for semi-supervised medical image segmentation	None	MedIA2022
2022-10	J. Chen and J. Han	Semi-supervised Unpaired Medical Image Segmentation Through Task-affinity Consistency	Code	TMI2022
2022-09	H. Huang and Y. Zou	Complementary consistency semi-supervised learning for 3D left atrial image segmentation	Code	Arxiv
2022-09	R. Gu and S. Zhang	Contrastive Semi-supervised Learning for Domain Adaptive Segmentation Across Similar Anatomical Structures	Code	TMI2022
2022-09	Q. Jin and R. Su	Semi-supervised Histological Image Segmentation via Hierarchical Consistency Enforcement	None	MICCAI2022
2022-09	J. Xiang and Y. Yang	FUSSNet: Fusing Two Sources of Uncertainty for Semi-supervised Medical Image Segmentation	Code	MICCAI2022
2022-09	V. Nath and D. Xu	Warm Start Active Learning with Proxy Labels and Selection via Semi-supervised Fine-Tuning	None	MICCAI2022
2022-09	J. Liu and Y. Zhou	Semi-supervised Medical Image Segmentation Using Cross-Model Pseudo-Supervision with Shape Awareness and Local Context Constraints	Code	MICCAI2022
2022-09	Y. Meng and Y. Zheng	Shape-Aware Weakly/Semi-Supervised Optic Disc and Cup Segmentation with Regional/Marginal Consistency	Code	MICCAI2022
2022-09	X. Zhao and G. Li	Semi-supervised Spatial Temporal Attention Network for Video Polyp Segmentation	Code	MICCAI2022
2022-09	J. Wu and D. Ding	Semi-supervised Learning for Nerve Segmentation in Corneal Confocal Microscope Photography	None	MICCAI2022
2022-09	H. Basak and R. Sarkar	Addressing Class Imbalance in Semi-supervised Image Segmentation: A Study on Cardiac MRI	None	MICCAI2022
2022-08	Q. Wang and J. Chen	A regularization-driven Mean Teacher model based on semi-supervised learning for medical image segmentation	Code	PMB2022
2022-08	Y. Meng and Y. Zheng	Dual Consistency Enabled Weakly and Semi-Supervised Optic Disc and Cup Segmentation with Dual Adaptive Graph Convolutional Networks	Code	TMI2022
2022-08	T. Lei and B. Lu	Semi-Supervised 3D Medical Image Segmentation Using Shape-Guided Dual Consistency Learning	None	ICME2022
2022-08	J. Chen and C. Sham	Uncertainty teacher with dense focal loss for semi-supervised medical image segmentation	None	CBM2022
2022-08	L. Xie and Y. Feng	Semi-supervised region-connectivity-based cerebrovascular segmentation for time-of-flight magnetic resonance angiography image	Code	CBM2022
2022-08	G. Wang and S. Zhang	PyMIC: A deep learning toolkit for annotation-efficient medical image segmentation	Code	Arxiv
2022-08	J. Zammit and P. Hu	Semi-supervised COVID-19 CT image segmentation using deep generative models	Code	BMC Bioinformatics
2022-08	Z. Wang and B. Huang	When CNN Meet with ViT: Towards Semi-Supervised Learning for Multi-Class Medical Image Semantic Segmentation	Code	Arxiv2022
2022-08	Z. Wang and I. Voiculescu	Triple-View Feature Learning for Medical Image Segmentation	Code	Arxiv2022
2022-08	Z. Zhang and Z. Jiao	Dynamic Prototypical Feature Representation Learning Framework for Semi-supervised Skin Lesion Segmentation	None	NeuCom2022
2022-08	M. Xu and J. Jacob	Bayesian Pseudo Labels: Expectation Maximization for Robust and Efficient Semi-Supervised Segmentation	Code	MICCAI2022
2022-07	X. Li and S. Gao	TCCNet: Temporally Consistent Context-Free Network for Semi-supervised Video Polyp Segmentation	Code	IJCAI2022
2022-07	T. Wang and H. Kong	Uncertainty-Guided Pixel Contrastive Learning for Semi-Supervised Medical Image Segmentation	None	IJCAI2022
2022-07	R. Jiao and J. Zhang	Learning with Limited Annotations: A Survey on Deep Semi-Supervised Learning for Medical Image Segmentation	None	Arxiv2022
2022-07	Z. Yang and S. Tang	VoxSeP: semi-positive voxels assist self-supervised 3D medical segmentation	None	MMSystems2022
2022-07	Z. Xu and T. Lukasiewicz	PCA: Semi-supervised Segmentation with Patch Confidence Adversarial Training	None	Arxiv2022
2022-07	N. Shen and J. Li	SCANet: A Unified Semi-supervised Learning Framework for Vessel Segmentation	Code	TMI2022
2022-07	Z. Zhao and C. Guan	MMGL: Multi-Scale Multi-View Global-Local Contrastive learning for Semi-supervised Cardiac Image Segmentation	None	ICIP2022
2022-07	Z. Zhao and C. Guan	ACT-Net: Asymmetric Co-Teacher Network for Semi-supervised Memory-efficient Medical Image Segmentation	None	ArXiv2022
2022-07	K. Wang and L. Zhou	An Efficient Semi-Supervised Framework with Multi-Task and Curricu-lum Learning for Medical Image Segmentation	Code	IJNS2022
2022-07	B. Fazekas and H. Bogunovi´c	SD-LayerNet: Semi-supervised retinal layer segmentation in OCT using disentangled representation with anatomical priors	Code	MICCAI2022
2022-06	C. Chen and R. Xiao	Generative Consistency for Semi-Supervised Cerebrovascular Segmentation from TOF-MRA	Code	TMI2022
2022-06	X. Luo and S. Zhang	Semi-Supervised Medical Image Segmentation via Uncertainty Rectified Pyramid Consistency	Code	MedIA2022
2022-06	Y. Liu and S. Li	A Contrastive Consistency Semi-supervised Left Atrium Segmentation Model	Code	CMIG2022
2022-06	J. Wang and T. Lukasiewicz	Rethinking Bayesian Deep Learning Methods for Semi-Supervised Volumetric Medical Image Segmentation	Code	CVPR2022
2022-06	H. Wu and J. Qin	Cross-patch Dense Contrastive Learning for Semi-supervised Segmentation of Cellular Nuclei in Histopathologic Images	Code	CVPR2022
2022-06	Y. Xiao and G. Yang	Semi-Supervised Segmentation of Mitochondria from Electron Microscopy Images Using Spatial Continuity	Code	ISBI2022
2022-06	X. Liu and J. Woo	ACT: Semi-supervised Domain-adaptive Medical Image Segmentation with Asymmetric Co-Training	None	MICCAI2022
2022-06	C. You and J. Duncan	Bootstrapping Semi-supervised Medical Image Segmentation with Anatomical-aware Contrastive Distillation	None	Arxiv
2022-06	Z. Zhang and Z. Jiao	Mutual- and Self- Prototype Alignment for Semisupervised Medical Image Segmentation	None	Arxiv
2022-06	X. Chen and Y. Yu	MASS: Modality-collaborative semi-supervised segmentation by exploiting cross-modal consistency from unpaired CT and MRI images	Code	MedIA
2022-05	Y. Lu and M. Meng	Multiple Consistency Supervision based Semi-supervised OCT Segmentation using Very Limited Annotations	None	ICRA2022
2022-05	W. Huang and F. Wu	Semi-Supervised Neuron Segmentation via Reinforced Consistency Learning	Code	TMI2022
2022-05	C. Lee and M. Chung	Voxel-wise Adversarial Semi-supervised Learning for Medical Image Segmentation	None	Arxiv
2022-05	Y. Lin and X. Li	Calibrating Label Distribution for Class-Imbalanced Barely-Supervised Knee Segmentation	Code	MICCAI2022
2022-05	K. Zheng and J. Wei	Double Noise Mean Teacher Self-Ensembling Model for Semi-Supervised Tumor Segmentation	None	ICASSP2022
2022-04	Y. Xiao and G. Yang	Semi-Supervised Segmentation of Mitochondria from Electron Microscopy Images Using Spatial Continuity	Code	ISBI2022
2022-04	H. He and V. Grau	Semi-Supervised Coronary Vessels Segmentation from Invasive Coronary Angiography with Connectivity-Preserving Loss Function	None	ISBI2022
2022-04	B. Thompson and J. Voisey	Pseudo-Label Refinement Using Superpixels for Semi-Supervised Brain Tumour Segmentation	None	ISBI2022
2022-04	Z li and X. Fan	Coupling Deep Deformable Registration with Contextual Refinement for Semi-Supervised Medical Image Segmentation	None	ISBI2022
2022-04	A. Xu and X. Xia	Ca-Mt: A Self-Ensembling Model for Semi-Supervised Cardiac Segmentation with Elliptical Descriptor Based Contour-Aware	None	ISBI2022
2022-04	X. Wang and S. Chen	SSA-Net: Spatial Self-Attention Network for COVID-19 Pneumonia Infection Segmentation with Semi-supervised Few-shot Learning	None	MedIA2022
2022-04	Z. Zhang and X. Tian	Discriminative Error Prediction Network for Semi-supervised Colon Gland Segmentation	None	MedIA2022
2022-04	Z. Xiao and W. Zhang	Efficient Combination of CNN and Transformer for Dual-Teacher Uncertainty-Aware Guided Semi-Supervised Medical Image Segmentation	None	SSRN
2022-04	K. Han and Z. Liu	An Effective Semi-supervised Approach for Liver CT Image Segmentation	None	JBHI2022
2022-04	J. Yang and Q. Chen	Self-Supervised Sequence Recovery for SemiSupervised Retinal Layer Segmentation	None	JBHI2022
2022-04	T. Cheng and C. Cheng	Feature-enhanced Adversarial Semi-supervised Semantic Segmentation Network for Pulmonary Embolism Annotation	None	Arxiv
2022-04	K. Wang and Y. Wang	Semi-supervised Medical Image Segmentation via a Tripled-uncertainty Guided Mean Teacher Model with Contrastive Learning	None	MedIA2022
2022-04	M. Liu and Q. He	CCAT-NET: A Novel Transformer Based Semi-supervised Framework for Covid-19 Lung Lesion Segmentation	None	ISBI2022
2022-03	Y. Liu and G. Carneiro	Translation Consistent Semi-supervised Segmentation for 3D Medical Images	Code	Arxiv
2022-03	Z. Xu and R. Tong	All-Around Real Label Supervision: Cyclic Prototype Consistency Learning for Semi-supervised Medical Image Segmentation	None	JBHI2022
2022-03	M. Huang and Q. Feng	Semi-Supervised Hybrid Spine Network for Segmentation of Spine MR Images	Code	Arxiv
2022-03	S. Adiga V and H. Lombaert	Leveraging Labeling Representations in Uncertainty-based Semi-supervised Segmentation	None	Arxiv
2022-03	M. Tran and T. Peng	S5CL: Unifying Fully-Supervised, Self-Supervised, and Semi-Supervised Learning Through Hierarchical Contrastive Learning	Code	Arxiv
2022-03	M. Waerebeke and J. Dole	On the pitfalls of entropy-based uncertainty for multi-class semi-supervised segmentation	None	Arxiv
2022-03	W. Cui and R. M. Leahy	Semi-supervised Learning using Robust Loss	None	Arxiv
2022-02	Z. Fang and Y. Yin	Annotation-Efficient COVID-19 Pneumonia Lesion Segmentation using Error-Aware Unified Semi-supervised and Active Learning	None	TAI2022
2022-03	Y. Wu and J. Cai	Exploring Smoothness and Class-Separation for Semi-supervised Medical Image Segmentation	None	Arxiv
2022-02	Y. Hua and L. Zhang	Uncertainty-Guided Voxel-Level Supervised Contrastive Learning for Semi-Supervised Medical Image Segmentation	None	IJNS2022
2022-02	Y. Shu and W. Li	Cross-Mix Monitoring for Medical Image Segmentation with Limited Supervision	None	TMM2022
2022-02	H. Huang and H. Hu	MTL-ABS3Net: Atlas-Based Semi-Supervised Organ Segmentation Network with Multi-Task Learning for Medical Images	None	JHBI2022
2022-02	H. Wu and J. Qin	Semi-supervised Segmentation of Echocardiography Videos via Noise-resilient Spatiotemporal Semantic Calibration and Fusion	None	MedIA2022
2022-02	Z. Liu and C. Zhao	Semi-supervised Medical Image Segmentation via Geometry-aware Consistency Training	None	Arxiv
2022-02	X. Zhao and G. Li	Cross-level Contrastive Learning and Consistency Constraint for Semi-supervised Medical Image Segmentation	Code	ISBI2022
2022-02	H. Basak and A. Chatterjee	An Embarrassingly Simple Consistency Regularization Method for Semi-Supervised Medical Image Segmentation	Code	ISBI2022
2022-01	Q. Chen and D. Ming	Semi-supervised 3D Medical Image Segmentation Based on Dual-task Consistent joint Leanrning and Task-Level Regularization	None	TCBB2022
2022-01	H. Yao and X. Li	Enhancing Pseudo Label Quality for Semi-Supervised Domain-Generalized Medical Image Segmentation	None	AAAI2022
2021-12	S. Li and X. Yang	Semi-supervised Cardiac MRI Segmentation Based on Generative Adversarial Network and Variational Auto-Encoder	None	BIBM2021
2021-12	N. Zhang and Y. Zhang	Semi-supervised Medical Image Segmentation with Distribution Calibration and Non-local Semantic Constraint	None	BIBM2021
2021-12	S. Liu and G. Cao	Shape-aware Multi-task Learning for Semi-supervised 3D Medical Image Segmentation	None	BIBM2021
2021-12	X. Xu and P. Yan	Shadow-consistent Semi-supervised Learning for Prostate Ultrasound Segmentation	Code	TMI2021
2021-12	L. Hu and Y. Wang	Semi-supervised NPC segmentation with uncertainty and attention guided consistency	None	KBS2021
2021-12	J. Peng and M. Pedersoli	Self-Paced Contrastive Learning for Semi-supervised Medical Image Segmentation with Meta-labels	Code	NeurIPS2021
2021-12	Y. Xie and Y. Xia	Intra- and Inter-pair Consistency for Semi-supervised Gland Segmentation	None	TIP2021
2021-12	M. Xu and J. Jacob	Learning Morphological Feature Perturbations for Semi-Supervised Segmentation	Code	MIDL2022
2021-12	X. Luo and S. Zhang	Semi-Supervised Medical Image Segmentation via Cross Teaching between CNN and Transformer	Code	MIDL2022
2021-12	Y. Zhang and J. Zhang	Uncertainty-Guided Mutual Consistency Learning for Semi-Supervised Medical Image Segmentation	None	Arxiv
2021-12	J. Wang and Q. Zhou	Separated Contrastive Learning for Organ-at-Risk and Gross-Tumor-Volume Segmentation with Limited Annotat	Code	AAAI2022
2021-12	J. Chen and Y. Lu	MT-TransUNet: Mediating Multi-Task Tokens in Transformers for Skin Lesion Segmentation and Classification	Code	Arxiv
2021-12	C. Seibold and R. Stiefelhagen	Reference-guided Pseudo-Label Generation for Medical Semantic Segmentation	None	AAAI2022
2021-11	X. Zheng and C. Sham	Uncertainty-Aware Deep Co-training for Semi-supervised Medical Image Segmentation	None	Arxiv
2021-11	J. Peng and M. Pedersoli	Diversified Multi-prototype Representation for Semi-supervised Segmentation	Code	Arxiv
2021-10	J. Hou and J. Deng	Semi-Supervised Semantic Segmentation of Vessel Images using Leaking Perturbations	None	WACV2021
2021-10	M. Xu and J. Jacob	MisMatch: Learning to Change Predictive Confidences with Attention for Consistency-Based, Semi-Supervised Medical Image Segmentation	None	Arxiv
2021-10	H. Wu and J. Qin	Collaborative and Adversarial Learning of Focused and Dispersive Representations for Semi-supervised Polyp Segmentation	None	ICCV2021
2021-10	Y. Shi and Y. Gao	Inconsistency-aware Uncertainty Estimation for Semi-supervised Medical Image Segmentation	Code	TMI2021
2021-09	G. Wang and S. Zhang	Semi-Supervised Segmentation of Radiation-Induced Pulmonary Fibrosis from Lung CT Scans with Multi-Scale Guided Dense Attention	Code	TMI2021
2021-09	K. Wang and Y. Wang	Tripled-Uncertainty Guided Mean Teacher Model for Semi-supervised Medical Image Segmentation	Code	MICCAI2021
2021-09	H. Huang and R. Tong	3D Graph-S2Net: Shape-Aware Self-ensembling Network for Semi-supervised Segmentation with Bilateral Graph Convolution	None	MICCAI2021
2021-09	L. Zhu and B. Ooi	Semi-Supervised Unpaired Multi-Modal Learning for Label-Efficient Medical Image Segmentation	Code	MICCAI2021
2021-09	R. Zhang and G. Li	Self-supervised Correction Learning for Semi-supervised Biomedical Image Segmentation	Code	MICCAI2021
2021-09	D. Kiyasseh and A. Chen	Segmentation of Left Atrial MR Images via Self-supervised Semi-supervised Meta-learning	None	MICCAI2021
2021-09	Y. Wu and J. Cai	Enforcing Mutual Consistency of Hard Regions for Semi-supervised Medical Image Segmentation	None	Arxiv
2021-09	X. Zeng and Y. Wang	Reciprocal Learning for Semi-supervised Segmentation	Code	MICCAI2021
2021-09	G. Zhang and S. Jiang	Automatic segmentation of organs at risk and tumors in CT images of lung cancer from partially labelled datasets with a semi-supervised conditional nnU-Net	None	CMPB2021
2021-09	J. Chen and G. Yang	Adaptive Hierarchical Dual Consistency for Semi-Supervised Left Atrium Segmentation on Cross-Domain Data	Code	TMI2021
2021-09	X. Hu and Y. Shi	Semi-supervised Contrastive Learning for Label-efficient Medical Image Segmentation	Code	MICCAI2021
2021-09	G. Chen and J. Shi	MTANS: Multi-Scale Mean Teacher Combined Adversarial Network with Shape-Aware Embedding for Semi-Supervised Brain Lesion Segmentation	Code	NeuroImage2021
2021-08	H. Peiris and M. Harandi	Duo-SegNet: Adversarial Dual-Views for Semi-Supervised Medical Image Segmentation	Code	MICCAI2021
2021-08	J. Sun and Y. Kong	Semi-Supervised Medical Image Semantic Segmentation with Multi-scale Graph Cut Loss	None	ICIP2021
2021-08	X. Shen and J. Lu	PoissonSeg: Semi-Supervised Few-Shot Medical Image Segmentation via Poisson Learning	None	ArXiv
2021-08	C. You and J. Duncan	SimCVD: Simple Contrastive Voxel-Wise Representation Distillation for Semi-Supervised Medical Image Segmentation	None	Arxiv
2021-08	C. Li and P. Heng	Self-Ensembling Co-Training Framework for Semi-supervised COVID-19 CT Segmentation	None	JBHI2021
2021-08	H. Yang and P. H. N. With	Medical Instrument Segmentation in 3D US by Hybrid Constrained Semi-Supervised Learning	None	JBHI2021
2021-07	Q. Xu and X. Wang	Semi-supervised Medical Image Segmentation with Confidence Calibration	None	IJCNN
2021-07	W. Ding and H. Hawash	RCTE: A Reliable and Consistent Temporal-ensembling Framework for Semi-supervised Segmentation of COVID-19 Lesions	None	Information Fusion2021
2021-06	X. Liu and S. A. Tsaftaris	Semi-supervised Meta-learning with Disentanglement for Domain-generalised Medical Image Segmentation	Code	MICCAI2021
2021-06	P. Pandey and Mausam	Contrastive Semi-Supervised Learning for 2D Medical Image Segmentation	None	MICCAI2021
2021-06	C. Li and Y. Yu	Hierarchical Deep Network with Uncertainty-aware Semi-supervised Learning for Vessel Segmentation	None	Arxiv
2021-05	J. Xiang and S. Zhang	Self-Ensembling Contrastive Learning for Semi-Supervised Medical Image Segmentation	None	Arxiv
2021-05	S. Li and C. Guan	Hierarchical Consistency Regularized Mean Teacher for Semi-supervised 3D Left Atrium Segmentation	None	Arxiv
2021-05	C. You and J. Duncan	Momentum Contrastive Voxel-wise Representation Learning for Semi-supervised Volumetric Medical Image Segmentation	None	MICCAI2022
2021-05	Z. Xie and J. Yang	Semi-Supervised Skin Lesion Segmentation with Learning Model Confidence	None	ICASSP2021
2021-04	S. Reiß and R. Stiefelhagen	Every Annotation Counts: Multi-label Deep Supervision for Medical Image Segmentation	None	CVPR2021
2021-04	S. Chatterjee and A. Nurnberger	DS6, Deformation-aware Semi-supervised Learning: Application to Small Vessel Segmentation with Noisy Training Data	Code	MIDL
2021-04	A. Meyer and M. Rak	Uncertainty-Aware Temporal Self-Learning (UATS): Semi-Supervised Learning for Segmentation of Prostate Zones and Beyond	Code	Arxiv
2021-04	Y. Li and P. Heng	Dual-Consistency Semi-Supervised Learning with Uncertainty Quantification for COVID-19 Lesion Segmentation from CT Images	None	MICCAI2021
2021-03	Y. Zhang and C. Zhang	Dual-Task Mutual Learning for Semi-Supervised Medical Image Segmentation	Code	PRCV2021
2021-03	J. Peng and C. Desrosiers	Boosting Semi-supervised Image Segmentation with Global and Local Mutual Information Regularization	Code	MELBA
2021-03	Y. Wu and L. Zhang	Semi-supervised Left Atrium Segmentation with Mutual Consistency Training	None	MICCAI2021
2021-02	J. Peng and Y. Wang	Medical Image Segmentation with Limited Supervision: A Review of Deep Network Models	None	Arxiv
2021-02	J. Dolz and I. B. Ayed	Teach me to segment with mixed supervision: Confident students become masters	Code	IPMI2021
2021-02	C. Cabrera and K. McGuinness	Semi-supervised Segmentation of Cardiac MRI using Image Registration	None	Under review for MIDL2021
2021-02	Y. Wang and A. Yuille	Learning Inductive Attention Guidance for Partially Supervised Pancreatic Ductal Adenocarcinoma Prediction	None	TMI2021
2021-02	R. Alizadehsaniand U R. Acharya	Uncertainty-Aware Semi-supervised Method using Large Unlabelled and Limited Labeled COVID-19 Data	None	Arxiv
2021-02	D. Yang and D. Xu	Federated Semi-Supervised Learning for COVID Region Segmentation in Chest CT using Multi-National Data from China, Italy, Japan	None	MedIA2021
2020-01	E. Takaya and S. Kurihara	Sequential Semi-supervised Segmentation for Serial Electron Microscopy Image with Small Number of Labels	Code	Journal of Neuroscience Methods
2021-01	Y. Zhang and Z. He	Semi-supervised Cardiac Image Segmentation via Label Propagation and Style Transfer	None	Arxiv
2020-12	H. Wang and D. Chen	Unlabeled Data Guided Semi-supervised Histopathology Image Segmentation	None	Arxiv
2020-12	X. Luo and S. Zhang	Efficient Semi-supervised Gross Target Volume of Nasopharyngeal Carcinoma Segmentation via Uncertainty Rectified Pyramid Consistency	Code	MICCAI2021
2020-12	M. Abdel‐Basset and M. Ryan	FSS-2019-nCov: A Deep Learning Architecture for Semi-supervised Few-Shot Segmentation of COVID-19 Infection	None	Knowledge-Based Systems2020
2020-11	A. Chartsias and S. A. Tsaftaris	Disentangle, Align and Fuse for Multimodal and Semi-Supervised Image Segmentation	Code	TMI2021
2020-11	N. Horlava and N. Scherf	A comparative study of semi- and self-supervised semantic segmentation of biomedical microscopy data	None	Arxiv
2020-11	P. Wang and C. Desrosiers	Self-paced and self-consistent co-training for semi-supervised image segmentation	None	MedIA2021
2020-10	Y. Sun and L. Wang	Semi-supervised Transfer Learning for Infant Cerebellum Tissue Segmentation	None	MLMI2020
2020-10	L. Chen and D. Merhof	Semi-supervised Instance Segmentation with a Learned Shape Prior	Code	LABELS2020
2020-10	S. Shailja and B.S. Manjunath	Semi supervised segmentation and graph-based tracking of 3D nuclei in time-lapse microscopy	Code	Arxiv
2020-10	L. Sun and Y. Yu	A Teacher-Student Framework for Semi-supervised Medical Image Segmentation From Mixed Supervision	None	Arxiv
2020-10	J. Ma and X. Yang	Active Contour Regularized Semi-supervised Learning for COVID-19 CT Infection Segmentation with Limited Annotations	Code	Physics in Medicine & Biology2020
2020-10	W. Hang and J. Qin	Local and Global Structure-Aware Entropy Regularized Mean Teacher Model for 3D Left Atrium Segmentation	Code	MICCAI2020
2020-10	K. Tan and J. Duncan	A Semi-supervised Joint Network for Simultaneous Left Ventricular Motion Tracking and Segmentation in 4D Echocardiography	None	MICCAI2020
2020-10	Y. Wang and Z. He	Double-Uncertainty Weighted Method for Semi-supervised Learning	None	MICCAI2020
2020-10	K. Fang and W. Li	DMNet: Difference Minimization Network for Semi-supervised Segmentation in Medical Images	None	MICCAI2020
2020-10	X. Cao and L. Cheng	Uncertainty Aware Temporal-Ensembling Model for Semi-supervised ABUS Mass Segmentation	None	TMI2020
2020-09	Z. Zhang and W. Zhang	Semi-supervised Semantic Segmentation of Organs at Risk on 3D Pelvic CT Images	None	Arxiv
2020-09	J. Wang and G. Xie	Semi-supervised Active Learning for Instance Segmentation via Scoring Predictions	None	BMVC2020
2020-09	X. Luo and S. Zhang	Semi-supervised Medical Image Segmentation through Dual-task Consistency	Code	AAAI2021
2020-08	X. Huo and Q. Tian	ATSO: Asynchronous Teacher-Student Optimization for Semi-Supervised Medical Image Segmentation	None	Arxiv
2020-08	Y. Xie and Y. Xia	Pairwise Relation Learning for Semi-supervised Gland Segmentation	None	MICCAI2020
2020-07	K. Chaitanya and E. Konukoglu	Semi-supervised Task-driven Data Augmentation for Medical Image Segmentation	Code	Arxiv
2020-07	H. Ni and X. Huang	SiamParseNet: Joint Body Parsing and Label Propagation in Infant Movement Videos	Code	MICCAI2020
2020-07	S. Li and X. He	Shape-aware Semi-supervised 3D Semantic Segmentation for Medical Images	Code	MICCAI2020
2020-07	Y. Li and Y. Zheng	Self-Loop Uncertainty: A Novel Pseudo-Label for Semi-Supervised Medical Image Segmentation	None	MICCAI2020
2020-07	Z. Zhao and P. Heng	Learning Motion Flows for Semi-supervised Instrument Segmentation from Robotic Surgical Video	Code	MICCAI2020
2020-07	Y. Zhou and P. Heng	Deep Semi-supervised Knowledge Distillation for Overlapping Cervical Cell Instance Segmentation	Code	MICCAI2020
2020-07	A. Tehrani and H. Rivaz	Semi-Supervised Training of Optical Flow Convolutional Neural Networks in Ultrasound Elastography	None	MICCAI2020
2020-07	Y. He and S. Li	Dense biased networks with deep priori anatomy and hard region adaptation: Semi-supervised learning for fine renal artery segmentation	None	MedIA2020
2020-07	J. Peng and C. Desrosiers	Mutual information deep regularization for semi-supervised segmentation	Code	MIDL2020
2020-07	Y. Xia and H. Roth	Uncertainty-aware multi-view co-training for semi-supervised medical image segmentation and domain adaptation	None	WACV2020,MedIA2020
2020-07	X. Li and P. Heng	Transformation-Consistent Self-Ensembling Model for Semisupervised Medical Image Segmentation	Code	TNNLS2020
2020-06	F. Garcıa and S. Ourselin	Simulation of Brain Resection for Cavity Segmentation Using Self-Supervised and Semi-Supervised Learning	None	MICCAI2020
2020-06	H. Yang and P. With	Deep Q-Network-Driven Catheter Segmentation in 3D US by Hybrid Constrained Semi-Supervised Learning and Dual-UNet	None	MICCAI2020
2020-05	G. Fotedar and X. Ding	Extreme Consistency: Overcoming Annotation Scarcity and Domain Shifts	None	MICCAI2020
2020-04	C. Liu and C. Ye	Semi-Supervised Brain Lesion Segmentation Using Training Images with and Without Lesions	None	ISBI2020
2020-04	R. Li and D. Auer	A Generic Ensemble Based Deep Convolutional Neural Network for Semi-Supervised Medical Image Segmentation	Code	ISBI2020
2020-04	K. Ta and J. Duncan	A Semi-Supervised Joint Learning Approach to Left Ventricular Segmentation and Motion Tracking in Echocardiography	None	ISBI2020
2020-04	Q. Chang and D. Metaxas	Soft-Label Guided Semi-Supervised Learning for Bi-Ventricle Segmentation in Cardiac Cine MRI	None	ISBI2020
2020-04	D. Fan and L. Shao	Inf-Net: Automatic COVID-19 Lung Infection Segmentation from CT Images	Code	TMI2020
2019-10	L. Yu and P. Heng	Uncertainty-aware self-ensembling model for semi-supervised 3D left atrium segmentation	Code	MICCAI2019
2019-10	G. Bortsova and M. Bruijne	Semi-Supervised Medical Image Segmentation via Learning Consistency under Transformations	None	MICCAI2019
2019-10	Y. He and S. Li	DPA-DenseBiasNet: Semi-supervised 3D Fine Renal Artery Segmentation with Dense Biased Network and Deep Priori Anatomy	None	MICCAI2019
2019-10	H. Zheng and X. Han	Semi-supervised Segmentation of Liver Using Adversarial Learning with Deep Atlas Prior	None	MICCAI2019
2019-10	P. Ganayea and H. Cattin	Removing Segmentation Inconsistencies with Semi-Supervised Non-Adjacency Constraint	Code	MedIA2019
2019-10	Y. Zhao and C. Liu	Multi-view Semi-supervised 3D Whole Brain Segmentation with a Self-ensemble Network	None	MICCAI2019
2019-10	H. Kervade and I. Ayed	Curriculum semi-supervised segmentation	None	MICCAI2019
2019-10	S. Chen and M. Bruijne	Multi-task Attention-based Semi-supervised Learning for Medical Image Segmentation	None	MICCAI2019
2019-10	Z. Xu and M. Niethammer	DeepAtlas: Joint Semi-Supervised Learning of Image Registration and Segmentation	None	MICCAI2019
2019-10	S. Sedai and R. Garnavi	Uncertainty Guided Semi-supervised Segmentation of Retinal Layers in OCT Images	None	MICCAI2019
2019-10	G. Pombo and P. Nachev	Bayesian Volumetric Autoregressive Generative Models for Better Semisupervised Learning	Code	MICCAI2019
2019-06	W. Cui and C. Ye	Semi-Supervised Brain Lesion Segmentation with an Adapted Mean Teacher Model	None	IPMI2019
2019-06	K. Chaitanya and E. Konukoglu	Semi-supervised and Task-Driven Data Augmentation	Code	IPMI2019
2019-04	M. Jafari and P. Abolmaesumi	Semi-Supervised Learning For Cardiac Left Ventricle Segmentation Using Conditional Deep Generative Models as Prior	None	ISBI2019
2019-03	Z. Zhao and Z. Zeng	Semi-Supervised Self-Taught Deep Learning for Finger Bones Segmentation	None	BHI
2019-03	J. Peng and C. Desrosiers	Deep co-training for semi-supervised image segmentation	Code	PR2020
2019-01	Y. Zhou and A. Yuille	Semi-Supervised 3D Abdominal Multi-Organ Segmentation via Deep Multi-Planar Co-Training	None	WACV2019
2018-10	P. Ganaye and H. Cattin	Semi-supervised Learning for Segmentation Under Semantic Constraint	Code	MICCAI2018
2018-10	A. Chartsias and S. Tsaftari	Factorised spatial representation learning: application in semi-supervised myocardial segmentation	None	MICCAI2018
2018-09	X. Li and P. Heng	Semi-supervised Skin Lesion Segmentation via Transformation Consistent Self-ensembling Model	Code	BMVC2018
2018-04	Z. Feng and D. Shen	Semi-supervised learning for pelvic MR image segmentation based on multi-task residual fully convolutional networks	None	ISBI2018
2017-09	L. Gu and S. Aiso	Semi-supervised Learning for Biomedical Image Segmentation via Forest Oriented Super Pixels(Voxels)	None	MICCAI2017
2017-09	S. Sedai and R. Garnavi	Semi-supervised Segmentation of Optic Cup in Retinal Fundus Images Using Variational Autoencoder	None	MICCAI2017
2017-09	W. Bai and D. Rueckert	Semi-supervised Learning for Network-Based Cardiac MR Image Segmentation	None	MICCAI2017
2016-09	D. Mahapatra	Semi-supervised learning and graph cuts for consensus based medical image segmentation	None	PR2016

Code for semi-supervised medical image segmentation.

Some implementations of semi-supervised learning methods can be found in this Link.

Conclusion

• This repository provides daily-update literature reviews, algorithms' implementation, and some examples of using PyTorch for semi-supervised medical image segmentation. The project is under development. Currently, it supports 2D and 3D semi-supervised image segmentation and includes five widely-used algorithms' implementations.

• In the next two or three months, we will provide more algorithms' implementations, examples, and pre-trained models.

Questions and Suggestions

• If you have any questions or suggestions about this project, please contact me through email: luoxd1996@gmail.com or QQ Group (Chinese):906808850.