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Ground-truth segmentation data used for training Cellpose

Version 2 2020-12-10, 19:33

Version 1 2020-11-21, 21:24

dataset

posted on 2020-12-10, 19:33 authored by Carsen StringerCarsen Stringer, Michalis Michaelos, Marius PachitariuMarius Pachitariu

This dataset primarily contains images of cells from a large variety of fluorescent markers and image modalities, as well as ground truth segmentations. The dataset also contains a few images of non-cell biological structures and other natural images that can be naturally segmented into repetitive structures. In some cases the nucleus is labelled in a secondary blue channel.

The dataset was used to train the Cellpose segmentation algorithm, and can be accessed at https://www.cellpose.org/dataset.

For a complete description of the dataset, see the related paper: Cellpose: a generalist algorithm for cellular segmentation

Carsen Stringer, Tim Wang, Michalis Michaelos, Marius Pachitariu

bioRxiv 2020.02.02.931238; doi: https://doi.org/10.1101/2020.02.02.931238