Just want to announce the availability of LimeSeg, a plugin to perform 3D segmentation of objects labelled on their outline:
It’s an active-contour like method. Basically you define an initial shape (typically a sphere) that deforms into the object of interest thanks to the attraction of local image maxima.
If you want to get a rough idea of what’s possible and what are the typical images where it’s working please check the tutorials here:
We’ve tried to make it easy to use by providing simple commands and by integrating them with the standard IJ interface. But… this is the first time people have the occasion to use it without the developers being next to them. “Easy to use” is a relative notion , and the documentation is partial.
This forum is the perfect place for discussions and feedback, so do not hesitate to use this thread for any remark/suggestion. I’d be more than happy to get feedback and help if possible!
PS: I received invaluable help and encouragements from many people in this forum… Thank you all! So cool to be part of this amazing image analysis community.
PS2: Quick demo image: https://raw.githubusercontent.com/NicoKiaru/TestImages/master/Vesicles/Vesicles.tif