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 detailed 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

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.