Drosophila Cell Tracking

This 3D+t dataset shows an excerpt of a developing fruit fly (Drosophila melanogaster) embryo over 100 time steps during gastrulation. The movie has been recorded using a light sheet microscope. We provide dense manual annotations for cell lineages for all ~800 cells per frame.

Preview Image

The movie of this developing Drosophila melanogaster embryo has been recorded by the Hufnagel group, EMBL Heidelberg, Germany, with the light sheet microscope described in (Krzic et al., 2012).

The challenging task is to automatically segment and track all cells over all time steps to reconstruct full cell lineages.

To acquire manual cell tracking annotations, we first segmented this dataset using ilastik and refined the result with a seeded watershed. On average, this yielded ~800 cells per frame, which we then tracked manually over all 100 time steps using the Manual Tracking workflow in ilastik. We here provide the raw data, our segmentation and our manual annotations for benchmarking purposes.