🤖 How resilient are deep learning models to real-world imperfections in microscopy?
🔗 Practical guidelines for cell segmentation models under optical aberrations in microscopy. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2024.09.002
📚 CSBJ Quantum Biology and Biophotonics: https://www.csbj.org/qbio
#CellSegmentation #Microscopy #AIinBiology #OpticalAberrations #DeepLearning #BiomedicalAI #Cellpose #ComputationalBiology #PLCM
After a day and a half of #ImageAnalysis in the cloud with #dask by the IDR team, Damian Dalle Nogare takes over a practical session to apply several #AI models for cell segmentation using #Cellpose
Despite all their hype in AI, we found that Transformers do not outperform #Cellpose for cellular segmentation tasks: https://www.biorxiv.org/content/10.1101/2024.04.06.587952v1
#Cellpose 3! Not all images are perfect. Restore your images with Cellpose3 to get better segmentations, w/ @marius10p https://www.biorxiv.org/content/10.1101/2024.02.10.579780v1
(click to play gif)
AI under the microscope: the algorithms powering the search for cells: https://go.nature.com/3SVdFur. Nice article by Michael Eisenstein about cellular segmentation, with a shout out to #cellpose :) #biology #deeplearning
@ogi thanks, I did not realize this before, that's great. and yes we use #pyqtgraph in a bunch of projects, love how fast and flexible it is! #cellpose is our most popular software tool that uses it: https://github.com/MouseLand/cellpose
Cell/nuclei segmentation by training deep learning models for #CellPose and #StarDist incrementally, using sparse annotations
Latest work by Ko Sugawara, initiated in our team and completed at RIKEN
https://www.biorxiv.org/content/10.1101/2023.06.13.544786v1.full.pdf
I tried #CellPose model on materials science data. Looks like cellpose is not just for cells! Got very good results with small data set and 45 min training on Google colab . #python #deeplearning #Microscopy
I tried #CellPose model on materials science data. Looks like cellpose is not just for cells! Got very good results with small data set and 45 min training on Google colab . #python #deeplearning #bmicroscopy
Can chatGPT also answer github issues for me? :ablobpeek: #cellpose
