Spatiotemporal modeling of spatial transcriptomics
-
Updated
May 21, 2024 - Python
Spatiotemporal modeling of spatial transcriptomics
QuPath - Bioimage analysis & digital pathology
Segment Anything for Microscopy
a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
Large-scale cell segmentation with cellpose.
Computational Pathology Toolbox developed by TIA Centre, University of Warwick.
Cell tracking and segmentation software
Deep Learning Inferred Multiplex ImmunoFluorescence for IHC Image Quantification (https://deepliif.org) [Nature Machine Intelligence'22, CVPR'22, MICCAI'23, Histopathology'23, MICCAI'24]
MIC-MAQ for Microscopy Images of Cells - Multi Analyses and Quantifications is an ImageJ/Fiji Plugin for automatic segmentation of nuclei and/or cells for quantifications in other channels including foci detection
Official implementation of "ASF-YOLO: A Novel YOLO Model with Attentional Scale Sequence Fusion for Cell Instance Segmentation".
Evaluation of label free cell and nuclei segmentation
Deep-Learning enabled quantitative image analysis of for the yeast full life cycle
ClusterMap for multi-scale clustering analysis of spatial gene expression
Interactive deep learning whole-cell segmentation and thresholding using partial annotations
Instance Segmentation with PyTorch & PyTorch Lightning.
StarDist - Object Detection with Star-convex Shapes
StarDist plugin for napari
Code repository for the conference paper "Organoid Segmentation Using Self-Supervised Learning: How Complex Should the Pretext Task Be?" published and presented at the International Conference on Biomedical and Bioinformatics Engineering (ICBBE) 2023.
Cell image analysis pipeline for RPE cell identification, counting and maturity classification
A style-aware deep learning model for adaptive cell instance segmentation by contrastive fine-tuning.
Add a description, image, and links to the cell-segmentation topic page so that developers can more easily learn about it.
To associate your repository with the cell-segmentation topic, visit your repo's landing page and select "manage topics."