Very happy to see the publication of the manuscript describing “PlantSeg” a tool for the accurate and versatile segmentation of plant tissues into cells.
It has been a great team work together with Adrian Wolny & Lorenzo Cerrone from the labs of A. Kreshuk & F. Hamprecht (EMBL & Uni Heidelberg) as well as Kay Schneitz’s lab (Athul Vijayan, Rachele Tofanelli – TU Munich) and many others.
PlantSeg uses neural networks and diverse segmentation algorithm to segment plant cells in 3D in complex tissues. You can feed it confocal or light sheet images. We showcase its performances on lateral roots, ovules, shoot meristems, leaves and many more tissues. It works so well, that it can even segment non plant images (e.g. fly wing disc).
See: https://elifesciences.org/articles/57613 and https://github.com/hci-unihd/plant-seg