a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
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Updated
Apr 9, 2024 - Jupyter Notebook
a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
QuPath - Bioimage analysis & digital pathology
StarDist - Object Detection with Star-convex Shapes
Computational Pathology Toolbox developed by TIA Centre, University of Warwick.
Segment Anything for Microscopy
Usiigaci: stain-free cell tracking in phase contrast microscopy enabled by supervised machine learning
数据可视化, 数据挖掘, 数据处理 ETL分析
Spatiotemporal modeling of spatial transcriptomics
Deep Learning Inferred Multiplex ImmunoFluorescence for IHC Image Quantification (https://deepliif.org) [Nature Machine Intelligence'22, CVPR'22, MICCAI'23, Histopathology'23]
(NeurIPS 2022 CellSeg Challenge - 1st Winner) Open source code for "MEDIAR: Harmony of Data-Centric and Model-Centric for Multi-Modality Microscopy"
Instance Segmentation with PyTorch & PyTorch Lightning.
HiFormer: Hierarchical Multi-scale Representations Using Transformers for Medical Image Segmentation (WACV 2023)
Official and maintained implementation of the paper "Attention-Based Transformers for Instance Segmentation of Cells in Microstructures" [BIBM 2020].
Cell tracking and segmentation software
Encoder-Decoder Cell and Nuclei segmentation models
Official implementation of "ASF-YOLO: A Novel YOLO Model with Attentional Scale Sequence Fusion for Cell Instance Segmentation".
PyTorch implementation of several neural network models for cellular image segmentation
ClusterMap for multi-scale clustering analysis of spatial gene expression
For cell segmentation and tracking.
SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
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