Available Resources

Downloads and updates for EpiTools can be found here

Epithelial cells form diverse structures from squamous spherical organoids to densely packed pseudostratified tissues. Here, we describe a step-by-step protocol for deep-learning-assisted cell segmentation to achieve accurate quantification of fluorescently labelled individual cells in 3D within live tissues.

Github uploads can be found here

Downloads and updates  can be found here

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3D printed tissue stretcher

A napari plugin for automated parameter tuning in cell tracking. It optimises btrack to obtain a set of tracking parameters per dataset. Using that set of parameters, napari-easytrack can then track the cells, improving tracking accuracy and reducing manual correction time.​