Cellpose: A generalist deep learning algorithm for cell and nucleus segmentation.
25 January, 2022
========= SPEAKER
* Carsen Stringer (group leader at HHMI Janelia Research Campus, USA).
========= MODERATORS
Bram van den Broek (NKI Amsterdam), Elnaz Fazeli (UTurku), Rocco D'Antuono (Francis Crick Institute), Marius Pachitariu (HHMI)
========= Q&A
forum.image.sc/ - to be posted soon
========= CONTENT
Cellpose is deap-learning based tool for whole cell segmentation, which comes with generalized pretrained models. It works very well for whole cell, nuclei and tissue sections (imaged using fluorescence, phase contrast or DIC methods) without the need to do any additional preprocessing and model training. There are different implementations of cellpose including a web-based interface, ZeroCostDeepLearning4Mic jupyter notebook, Fiji, Napari, QuPath and CellProfiler-based platforms. During the webinar we demonstrate how cellpose works and how one can run it on their own datasets.
========= LEARNING OUTCOMES
Learn how cellpose works and how to run it on your own data.