Encoder-Decoder Cell and Nuclei segmentation models
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Updated
Oct 16, 2023 - Python
Encoder-Decoder Cell and Nuclei segmentation models
Graphical tool for creating image segmentation annotations and training custom Cellpose models
Wrapper code for segmentation of cells and nuclei with Cellpose.
Example workflows for image processing, segmentation and analysis. Stitching and alignment functions also implemented.
Python Instance (map) Eikonal Function Solver
This repository provides StarDist and CellPose models, meticulously trained on a large dataset of Pancreatic Ductal Adenocarcinoma organoids co-cultured with immune cells. Pre-print available at https://www.biorxiv.org/content/10.1101/2024.02.12.580032v1
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
Open Call #1: Segmentation and Tracking of Epithelial Cells
Open Call #1: Murine Skeletal Muscle Analysis
A snakemake pipeline to perform cell segmentation on MERFISH spatial transcriptomics data.
Large-scale cell segmentation with cellpose.
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