Jython script for Trackmate-Stardist

[jandoG]

Hi Jean-Vyes,

I wanted to create a Jython script to use the StarDistDetectorFactory to detect droplets and track them. I was trying to use the sample Jython script provided in this repo to analyze some images and quickly ran into errors.

I managed to make some changes and get it running. It still throws some errors which I have commented out in the code. But for the rest, it does the job of using the standard StarDist model to detect objects and track them.

I am attaching it here with a small sample image. I could also do a pull request if this looks okay.
stardist_trackmate.zip

Thanks and best,
Gayathri

[tinevez]

Awesome!
Let's do this.

[jandoG]

I don't have permission to create a branch, unfortunately. Could you add me?

[tinevez]

Ah no worries the usual way is to fork the repo to your org, make a commit there and then a pull request