An in vitro menstrual cycle using organoids captures epithelial cell transitions during menstruation and regeneration of the human endometrium

This repository contains the code used to perform the computational analysis and generate the figures in

• Nikolakopoulou et al.: An in vitro menstrual cycle using organoids captures epithelial cell transitions during menstruation and regeneration of the human endometrium. Cell Stem Cell 33(5):747-762.e8 (2026)

To browse the rendered reports, go to https://fmicompbio.github.io/IVMC-protocol/

Code snapshots corresponding to the published paper as well as the preprint are archived on Zenodo