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

Recently Added Most Hyped Most Active Needs Verification Most Verified

Showing 26–50 of 178 papers

Title	Date	Tasks	Status	Hype	Score
Attention-Based Transformers for Instance Segmentation of Cells in Microstructures	Nov 19, 2020	Cell DetectionCell Segmentation	CodeCode Available	1	5
NuLite -- Lightweight and Fast Model for Nuclei Instance Segmentation and Classification	Aug 3, 2024	Cell DetectionCell Segmentation	CodeCode Available	1	5
Multi-stream Cell Segmentation with Low-level Cues for Multi-modality Images	Oct 22, 2023	Cell SegmentationSegmentation	CodeCode Available	1	5
Point-supervised Single-cell Segmentation via Collaborative Knowledge Sharing	Apr 20, 2023	Cell Segmentationobject-detection	CodeCode Available	1	5
LIVECell—A large-scale dataset for label-free live cell segmentation	Aug 30, 2021	Cell SegmentationCultural Vocal Bursts Intensity Prediction	CodeCode Available	1	5
MEDIAR: Harmony of Data-Centric and Model-Centric for Multi-Modality Microscopy	Dec 7, 2022	Cell SegmentationElectron Microscopy Image Segmentation	CodeCode Available	1	5
Accurate and versatile 3D segmentation of plant tissues at cellular resolution	Jul 29, 2020	Cell Segmentationgraph partitioning	CodeCode Available	1	5
Local Label Point Correction for Edge Detection of Overlapping Cervical Cells	Oct 5, 2020	Cell SegmentationEdge Detection	CodeCode Available	1	5
LKCell: Efficient Cell Nuclei Instance Segmentation with Large Convolution Kernels	Jul 25, 2024	Cell SegmentationDecoder	CodeCode Available	1	5
Contour Proposal Networks for Biomedical Instance Segmentation	Apr 7, 2021	Blood Cell DetectionCell Detection	CodeCode Available	1	5
Few-Shot Microscopy Image Cell Segmentation	Jun 29, 2020	Cell SegmentationFew-Shot Learning	CodeCode Available	1	5
Mind the Gap: Evaluating Patch Embeddings from General-Purpose and Histopathology Foundation Models for Cell Segmentation and Classification	Feb 4, 2025	Cell SegmentationDecoder	CodeCode Available	1	5
PolarMask++: Enhanced Polar Representation for Single-Shot Instance Segmentation and Beyond	May 5, 2021	Cell SegmentationInstance Segmentation	CodeCode Available	1	5
CellSeg1: Robust Cell Segmentation with One Training Image	Dec 2, 2024	Cell SegmentationSegmentation	CodeCode Available	1	5
DoubleU-Net: A Deep Convolutional Neural Network for Medical Image Segmentation	Jun 8, 2020	Cell SegmentationColorectal Polyps Characterization	CodeCode Available	1	5
An Instance Segmentation Dataset of Yeast Cells in Microstructures	Apr 15, 2023	Cell SegmentationImage Segmentation	CodeCode Available	1	5
Fully Unsupervised Diversity Denoising with Convolutional Variational Autoencoders	Jun 10, 2020	Cell SegmentationDenoising	CodeCode Available	1	5
TSFD-Net: Tissue specific feature distillation network for nuclei segmentation and classification	Mar 9, 2022	Cell SegmentationClassification	CodeCode Available	1	5
Scribble2Label: Scribble-Supervised Cell Segmentation via Self-Generating Pseudo-Labels with Consistency	Jun 23, 2020	Cell SegmentationSegmentation	CodeCode Available	1	5
Analysis of the performance of U-Net neural networks for the segmentation of living cells	Oct 4, 2022	Cell SegmentationCell Tracking	CodeCode Available	0	5
aura-net : robust segmentation of phase-contrast microscopy images with few annotations	Feb 2, 2021	Cell SegmentationSegmentation	CodeCode Available	0	5
IRNet: Instance Relation Network for Overlapping Cervical Cell Segmentation	Aug 19, 2019	Cell SegmentationInstance Segmentation	CodeCode Available	0	5
Attention-Guided Residual U-Net with SE Connection and ASPP for Watershed-Based Cell Segmentation in Microscopy Images	Oct 18, 2024	Cell SegmentationElectron Microscopy Image Segmentation	CodeCode Available	0	5
Knowing What to Label for Few Shot Microscopy Image Cell Segmentation	Nov 18, 2022	Cell Segmentation	CodeCode Available	0	5
Guided Prompting in SAM for Weakly Supervised Cell Segmentation in Histopathological Images	Nov 29, 2023	Cell SegmentationImage Segmentation	CodeCode Available	0	5

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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