Cell Tracking

Benchmarks archive 2025-07-28

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Datasets archive 2025-07-28

1 dataset whose archive record lists this task, ordered by the archive's paper count.

Subtasks archive 2025-07-28

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Parent tasks archive 2025-07-28

Most implemented papers archive 2025-07-28

30 shown of 46 papers with code (74 tagged with this task in all), ordered by repositories listed in the archive, not by stars (the archive holds no stars, so PwC's “Social” and “Latest” sorts cannot be reproduced). Papers without a page here are shown as plain text.

• U-Net: Convolutional Networks for Biomedical Image Segmentation
  18 May 2015 487 repositories listed Syntology ran 510 of 757 samples · 247 unverified · 426 pointer-only (licence)
  There is large consent that successful training of deep networks requires many thousand annotated training samples.
• MPM: Joint Representation of Motion and Position Map for Cell Tracking
  25 Feb 2020 3 repositories listed
  Conventional cell tracking methods detect multiple cells in each frame (detection) and then associate the detection results in successive time-frames (association).
• Microscopy Cell Segmentation via Convolutional LSTM Networks
  29 May 2018 3 repositories listed
  Live cell microscopy sequences exhibit complex spatial structures and complicated temporal behaviour, making their analysis a challenging task.
• Contrastive learning of cell state dynamics in response to perturbations
  15 Oct 2024 2 repositories listed
  We illustrate the features and applications of DynaCLR with the following experiments: analyzing the kinetics of viral infection in human cells, detecting transient changes in cell morphology due to cell division, and…
• Trackastra: Transformer-based cell tracking for live-cell microscopy
  24 May 2024 2 repositories listed
  Importantly, unlike existing transformer-based MOT pipelines, our learning architecture also accounts for dividing objects such as cells and allows for accurate tracking even with simple greedy linking, thus making…
• Graph Neural Network for Cell Tracking in Microscopy Videos
  9 Feb 2022 2 repositories listed
  By modeling the entire time-lapse sequence as a direct graph where cell instances are represented by its nodes and their associations by its edges, we extract the entire set of cell trajectories by looking for the…
• A Deep Learning Bidirectional Temporal Tracking Algorithm for Automated Blood Cell Counting from Non-invasive Capillaroscopy Videos
  26 Nov 2020 2 repositories listed
  Compared to manual blood cell counting, CycleTrack achieves 96.
• A Primal-Dual Solver for Large-Scale Tracking-by-Assignment
  14 Apr 2020 2 repositories listed
  We demonstrate the efficacy of our method on real-world tracking problems.
• VideoMolmo: Spatio-Temporal Grounding Meets Pointing
  5 Jun 2025 1 repository listed
  Current video-based approaches, while proficient in tracking, lack the sophisticated reasoning capabilities of large language models, limiting their contextual understanding and generalization.
• Accurate Tracking of Arabidopsis Root Cortex Cell Nuclei in 3D Time-Lapse Microscopy Images Based on Genetic Algorithm
  17 Apr 2025 1 repository listed
  To the best of our knowledge, this research represents the first successful attempt to address a long-standing problem in the field of time-lapse microscopy in the root meristem by proposing an accurate tracking method…
• PyUAT: Open-source Python framework for efficient and scalable cell tracking
  27 Mar 2025 1 repository listed
  Tracking individual cells in live-cell imaging provides fundamental insights, inevitable for studying causes and consequences of phenotypic heterogeneity, responses to changing environmental conditions or stressors.
• SINETRA: a Versatile Framework for Evaluating Single Neuron Tracking in Behaving Animals
  14 Nov 2024 1 repository listed
  Accurately tracking neuronal activity in behaving animals presents significant challenges due to complex motions and background noise.
• CHOTA: A Higher Order Accuracy Metric for Cell Tracking
  21 Aug 2024 1 repository listed
  We show that CHOTA is sensitive to all tracking errors and gives a good indication of the biologically relevant capability of a method to reconstruct the full lineage of cells.
• Robust Approximate Characterization of Single-Cell Heterogeneity in Microbial Growth
  8 Aug 2024 1 repository listed
  Live-cell microscopy allows to go beyond measuring average features of cellular populations to observe, quantify and explain biological heterogeneity.
• Cell Tracking according to Biological Needs -- Strong Mitosis-aware Multi-Hypothesis Tracker with Aleatoric Uncertainty
  22 Mar 2024 1 repository listed Syntology ran 1 of 1 samples · 0 unverified
  Cell tracking and segmentation assist biologists in extracting insights from large-scale microscopy time-lapse data.
• A Novel Deep Learning Approach Featuring Graph-Based Algorithm for Cell Segmentation and Tracking
  18 Jan 2024 1 repository listed
  In this paper, we propose a novel DL approach featuring graph-based tracking for cell segmentation and tracking in microscopy images.
• Prediction of Cellular Identities from Trajectory and Cell Fate Information
  11 Jan 2024 1 repository listed
  Determining cell identities in imaging sequences is an important yet challenging task.
• A Weakly Supervised Learning Method for Cell Detection and Tracking Using Incomplete Initial Annotations
  7 Nov 2023 1 repository listed
  After training the model on the two datasets, with labels that comprise 10% cell markers, the DET improved from 0.
• Cell Tracking-by-detection using Elliptical Bounding Boxes
  7 Oct 2023 1 repository listed
  This work proposes a new approach based on the classical tracking-by-detection paradigm that alleviates the requirement of annotated data.
• Large-Scale Multi-Hypotheses Cell Tracking Using Ultrametric Contours Maps
  8 Aug 2023 1 repository listed
  In this work, we describe a method for large-scale 3D cell-tracking through a segmentation selection approach.
• Enhancing Cell Tracking with a Time-Symmetric Deep Learning Approach
  4 Aug 2023 1 repository listed
  To address this issue, we aimed to develop a new deep-learning based tracking method that relies solely on the assumption that cells can be tracked based on their spatio-temporal neighborhood, without restricting it to…
• Generative modeling of living cells with SO(3)-equivariant implicit neural representations
  18 Apr 2023 1 repository listed
  Finally, we show how microscopy images of living cells that correspond to our generated cell shapes can be synthesized using an image-to-image model.
• Cell tracking for live-cell microscopy using an activity-prioritized assignment strategy
  20 Oct 2022 1 repository listed
  Cell tracking is an essential tool in live-cell imaging to determine single-cell features, such as division patterns or elongation rates.
• Analysis of the performance of U-Net neural networks for the segmentation of living cells
  4 Oct 2022 1 repository listed
  The automated analysis of microscopy images is a challenge in the context of single-cell tracking and quantification.
• Tracking by weakly-supervised learning and graph optimization for whole-embryo C. elegans lineages
  24 Aug 2022 1 repository listed
  Our work specifically addresses the following challenging properties of C.
• Training a universal instance segmentation network for live cell images of various cell types and imaging modalities
  28 Jul 2022 1 repository listed
  We share our recent findings in an attempt to train a universal segmentation network for various cell types and imaging modalities.
• Implicit Neural Representations for Generative Modeling of Living Cell Shapes
  13 Jul 2022 1 repository listed Syntology ran 1 of 6 samples · 5 unverified
  Deep generative models for cell shape synthesis require a light-weight and flexible representation of the cell shape.
• EmbedTrack -- Simultaneous Cell Segmentation and Tracking Through Learning Offsets and Clustering Bandwidths
  22 Apr 2022 1 repository listed
  A systematic analysis of the cell behavior requires automated approaches for cell segmentation and tracking.
• EfficientCellSeg: Efficient Volumetric Cell Segmentation Using Context Aware Pseudocoloring
  6 Apr 2022 1 repository listed
  Since the number of available 3D microscopy images is typically limited in applications, we take a different approach and introduce a small CNN for volumetric cell segmentation.
• FastDOG: Fast Discrete Optimization on GPU
  19 Nov 2021 1 repository listed
  We present a massively parallel Lagrange decomposition method for solving 0--1 integer linear programs occurring in structured prediction.

Syntology lines on 3 of the papers shown; no Syntology record for the others (a paper without an arXiv id cannot be joined to the graph, and absence from the graph layer is not a recorded non-run). “Ran” means the sample executed on a synthesized fixture, not that the paper's result was reproduced. Read from the graph 2026-09-24.