I worked on some medical image processing research two decades ago and I used ImageJ then. I started to pick up some medical image processing projects again (some registration and segmentation). I checked out Fiji, which seems to be a successor of ImageJ. But the project does not seem to be very active anymore. I wonder if anyone what is a good alternative platform? I am mostly a Python programmer now and am familiar with machine learning backends like PyTorch and Keras.
$\begingroup$
$\endgroup$
Add a comment
|
3 Answers
$\begingroup$
$\endgroup$
I used to recommend ICY from Institut Pasteur, mostly dedicated to biomedical image analysis, it was active in June 2022, and CImg Library - C++ Template Image Processing Toolkit, a small and open-source C++ library for image processing, promoted by dear colleague David Tschumperlé (G'MIC twitter)(lastest version 3.1.4).
answered Jul 25, 2022 at 10:57
$\begingroup$
$\endgroup$
If you’re looking for a large collection of image processing functionality geared towards quantification, I will recommend DIPlib (I’m an author). It is different from ImageJ in that it doesn’t have a GUI, you need to write code. It is a C++ library that you can also use from within Python. It is useful for any imaging modality and application.
If you rather build an image processing pipeline through a GUI, I will recommend CellProfiler. This one is aimed specifically at cell microscopy, though I guess you could use it also for other applications.
answered Jul 26, 2022 at 2:59
$\begingroup$
$\endgroup$
I just learned about ModularImageAnalysis for ImageJ/FIJI. I am linking the paper about it, too.
