Inputting hand-generated XML with detected spots for interfacing with TrackMate's linking algorithms

Hi!

I have generated an XML file in a format resembling one generated by the TrackMate GUI with my own detection/filtering scripts that creates instances of spots throughout the frames of my movie. I was hoping to link this directly into TrackMate with a Python script. This would be analogous to loading an XML file into the GUI as an intermediate between filtering>detection and tracking. Is this possible and are the codes that exist to already achieve this? Thank you for looking at my question–I am excited to get this working!

Cheers,
Cyna

1 Like

Welcome to the forum, @Cyna_Shirazinejad!

Did you already see this guide?

Hello @Cyna_Shirazinejad

We are working on an example script that does that with @philgi.
We are not done yet but it should happen soon.
Watch this post for news:
Trackmate with manual detection and automatic tracking in jython script