Cellpose for Microscopy Segmentation
Segment cells from microscopy images using the Medical Imaging Toolbox™ Interface for Cellpose Library support package. The support package provides functionality for downloading pretrained models from the Cellpose Library, segmenting 2-D and 3-D images using Cellpose models, and training new models using your own microscopy data.
You can install the Medical Imaging Toolbox Interface for Cellpose Library from Add-On Explorer. For more information about installing add-ons, see Get and Manage Add-Ons. The support package also requires Deep Learning Toolbox™ and Computer Vision Toolbox™.
Functions
cellpose | Configure Cellpose model for cell segmentation (Since R2023b) |
segmentCells2D | Segment 2-D image using Cellpose (Since R2023b) |
segmentCells3D | Segment 3-D image volume using Cellpose (Since R2023b) |
trainCellpose | Train custom Cellpose model (Since R2023b) |
downloadCellposeModels | Download pretrained models from Cellpose Library (Since R2023b) |
Topics
- Getting Started with Cellpose
Segment cells from microscopy images using a pretrained Cellpose model, or train a custom model.
Featured Examples
Choose Pretrained Cellpose Model for Cell Segmentation
Segment cells from microscopy images using a pretrained Cellpose model.
Refine Cellpose Segmentation by Tuning Model Parameters
Explore and tune Cellpose parameters to improve segmentation results.
Detect Nuclei in Large Whole Slide Images Using Cellpose
Detect cell nuclei in whole slide images (WSIs) of tissue stained using hematoxylin and eosin (H&E) by using Cellpose.
Classify Tumors in Digital Pathology Images Using Cell Nucleus Morphology
Classify whole slide image (WSI) patches as normal or cancerous using pathomics.
Train Custom Cellpose Model
Train a custom Cellpose model, using new training data, to detect noncircular shapes.
