conversion and centroid-based-laptrack output problems

[piango]

original_image_labels

original_image_after_convert

original_image_after_convert_after_centroid-based-tracking

Hello.

Very cool plugin. I have just started using it.

Some background:

• I am tracking fluorescent particles in a fluid. one file
• I have already segmented the particles using stardist. one file (ignore the inefficient segmentation)
• Aiming to extract MSD curves with some tracking

What I have done with laptrack:
Convert

• I have tried to convert the 3d+t with "Convert to file-backed timelapse data (time-slicer)" for:
• -- the labelled layer (stardist output)
• -- original image
• the output of the labelled layer removes some labels (look at "original_image_after_convert" vs "original_image_labels"

Centroid-based-tracking with Laptrack

• and the output shows some transformation in the trajectories
• but the labels did not.

Im trying a bunch of different pipelines and python-based packages.

Hope this is enough information.

Take your time.