Cell Segmentation

Cell Segmentation is a task of splitting a microscopic image domain into segments, which represent individual instances of cells. It is a fundamental step in many biomedical studies, and it is regarded as a cornerstone of image-based cellular research. Cellular morphology is an indicator of a physiological state of the cell, and a well-segmented image can capture biologically relevant morphological information.

Source: Cell Segmentation by Combining Marker-controlled Watershed and Deep Learning

Papers

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Showing 161–170 of 178 papers

Title	Date	Tasks	Status
To pretrain or not to pretrain? A case study of domain-specific pretraining for semantic segmentation in histopathology	Jul 6, 2023	Cell SegmentationSegmentation	CodeCode Available
MorphoSeg: An Uncertainty-Aware Deep Learning Method for Biomedical Segmentation of Complex Cellular Morphologies	Sep 25, 2024	Cell SegmentationSegmentation	CodeCode Available
Multiclass Yeast Segmentation in Microstructured Environments with Deep Learning	Nov 16, 2020	Cell SegmentationDeep Learning	CodeCode Available
aura-net : robust segmentation of phase-contrast microscopy images with few annotations	Feb 2, 2021	Cell SegmentationSegmentation	CodeCode Available
Multi-scale Cell Instance Segmentation with Keypoint Graph based Bounding Boxes	Jul 22, 2019	Cell SegmentationInstance Segmentation	CodeCode Available
Comparison-Based Convolutional Neural Networks for Cervical Cell/Clumps Detection in the Limited Data Scenario	Oct 14, 2018	Cell SegmentationFew-Shot Learning	CodeCode Available
Towards Early Prediction of Human iPSC Reprogramming Success	May 23, 2023	Cell SegmentationPrediction	CodeCode Available
A Novel Deep Learning Approach Featuring Graph-Based Algorithm for Cell Segmentation and Tracking	Jan 18, 2024	Cell DetectionCell Segmentation	CodeCode Available
COIN: Confidence Score-Guided Distillation for Annotation-Free Cell Segmentation	Mar 14, 2025	Cell SegmentationInstance Segmentation	CodeCode Available
CE-Net: Context Encoder Network for 2D Medical Image Segmentation	Mar 7, 2019	Cell SegmentationDecoder	CodeCode Available

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All datasets Fluo-N2DL-HeLa LIVECell DIC-C2DH-HeLa EVICAN Fluo-N2DH-GOWT1 Fluo-N2DH-SIM+CoNSeP Fluo-C3DL-MDA231 MoNuSeg PanNuke PhC-C2DH-U373

Benchmark Results

#	Model	Metric	Claimed	Verified	Status
1	Dual U-Net (Neighbor distances)	SEG (~Mean IoU)	0.9	—	Unverified
2	DecLSTM	SEG (~Mean IoU)	0.84	—	Unverified
3	EncLSTM	SEG (~Mean IoU)	0.81	—	Unverified

#	Model	Metric	Claimed	Verified	Status
1	Cascade Mask RCNN-ResNest-200	mask AP	47.9	—	Unverified
2	CenterMask-VoVNet2-FPN	mask AP	47.8	—	Unverified
3	Point2Mask	mask AP	43.53	—	Unverified

#	Model	Metric	Claimed	Verified	Status
1	EncLSTM	SEG (~Mean IoU)	0.79	—	Unverified
2	DecLSTM	SEG (~Mean IoU)	0.51	—	Unverified

#	Model	Metric	Claimed	Verified	Status
1	DeepCeNS	mask AP	52.56	—	Unverified
2	EVICAN-MRCNN	mask AP	32.2	—	Unverified

#	Model	Metric	Claimed	Verified	Status
1	DecLSTM	SEG (~Mean IoU)	0.85	—	Unverified
2	EncLSTM	SEG (~Mean IoU)	0.85	—	Unverified

#	Model	Metric	Claimed	Verified	Status
1	EncLSTM	SEG (~Mean IoU)	0.81	—	Unverified
2	DecLSTM	SEG (~Mean IoU)	0.8	—	Unverified

#	Model	Metric	Claimed	Verified	Status
1	PromptNu	Average Dice	0.86	—	Unverified

#	Model	Metric	Claimed	Verified	Status
1	Dual U-Net (Neighbor distances)	SEG (~Mean IoU)	0.62	—	Unverified

#	Model	Metric	Claimed	Verified	Status
1	PromptNu	Average Dice	0.84	—	Unverified

#	Model	Metric	Claimed	Verified	Status
1	PromptNu	Average Dice	0.86	—	Unverified

#	Model	Metric	Claimed	Verified	Status
1	EncLSTM	SEG (~Mean IoU)	0.84	—	Unverified