I’m using trackmate to track objects from a binary timelapse mask.
To detect and track, I’m using trackmate and the BinaryDetector: a trackmate extension which uses IJ’s ParticleAnalyzer. This part is working fine.
Here’s the problem : I want to do some analysis on the original ROIs detected by the Particle Analyzer, but they’ve been lost into TrackMate, which handles each spot as a blob with
double properties, if I get it right.
I’ve tried to retrieve these ROIs by using the wand selection in the original mask image, taking the coordinates of the spots as the wand location but… I have elongated non convex objects, and thus I miss objects in many timepoints:
Any idea how to solve this ? I’m currently trying to find a way to create a linked map between spots and objects, directly modifying the BinaryDetector code. It’s tedious and not obvious. Maybe there’s a better option ? An already existing option ? A clever trick ?
Thanks for your help and suggestions!