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MicroSAM
MicroSAM
A tool designed for interactive segmentation and tracking in microscopy images, built on top of the Segment Anything model.
StarDist
StarDist
A tool designed for cell/nuclei segmentation in microscopy images. It is a deep learning based 2D and 3D object detection method with star-convex shapes.
Publications: https://arxiv.org/abs/1908.03636 https://arxiv.org/abs/2203.02284
cellSAM
cellSAM
An open-source deep learning tool for cell segmentation in microscopy images.
Trackastra
Trackastra
A tool designed for tracking cells over time in microscopy timelapse data by connecting previously segmented cells across frames.
Accelerated pixel and object classification (APOC)
Accelerated pixel and object classification (APOC)
A tool for napari that enables fast, GPU-accelerated machine learning to classify pixels and objects in images. It allows users to interactively train models for segmentation and object classification, mainly in bioimage analysis.
Convpaint
Convpaint
A machine learning-based plugin for napari that enables interactive image segmentation from quick manual annotations provided by the user. It uses pretrained convolutional neural networks to extract image features and classify regions or objects of interest.
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