EPySeg: a coding-free solution for automated segmentation of epithelia using deep learning.

ABSTRACT: Epithelia are dynamic tissues that self-remodel during their development. During morphogenesis, the tissue-scale organization of epithelia is obtained through a sum of individual contributions of the cells constituting the tissue. Therefore, understanding any morphogenetic event first requires a thorough segmentation of its constituent cells. This task, however, usually involves extensive manual correction, even with semi-automated tools. Here, we present EPySeg, an open-source, coding-free software that uses deep learning to segment membrane-stained epithelial tissues automatically and very efficiently. EPySeg, which comes with a straightforward graphical user interface, can be used as a Python package on a local computer, or on the cloud via Google Colab for users not equipped with deep-

SUBMITTER: Aigouy B 

PROVIDER: S-EPMC7774881 | biostudies-literature | 2020 Dec

REPOSITORIES: biostudies-literature