http://imagej.273.s1.nabble.com/Using-TrackMate-to-track-single-cell-migration-tp5017343p5017407.html
You might have better luck posting on the ImageJ Forum [1]. Alternately,
you could post a new issue in the TrackMate GitHub repository [2]. The best
> Hello everyone,
>
> I am attempting to track cell migration using the TrackMate plugin in Fiji
> and I have a couple questions. Here is a link to a dropbox with sample
> movies:
>
https://www.dropbox.com/sh/a1k56hm4xkt1tyt/AABQ-mMSR_1pLj4jHfod7357a?dl=0>
> I want to measure velocity and directionality of the single cells in my
> movies. I first tried to calibrate my image to 0.645 uM/pixel and 3
> min/frame. However, it doesn't seem like changing the calibration settings
> in the beginning has any effect on the statistics output. Is there a way to
> correct this?
>
> I detech the cells using the LoG Detector with parameters 15 pixel diameter
> and threshold equal to 1. I track the cells using the LAP Tracker
> (parameters Frame to Frame Linking = 190 and Track Segment Gap Closing =
> 50, Max Gap Closing = 2). This isn't consistent in tracking the cells
> across all frames. How can I optimize my parameters to ensure the tracks
> are tracking each individual cell throughout the entire movie?
>
> How is TrackMate calculating its statistics? I am unsure of the output's
> units. The values I am receiving also don't seem as if they would align
> with what I am expecting, which is around 15 - 30 uM/min for a single cell
> migrating across the entire frame.
>
> When using the "Capture Overlay" function to record the tracks of cell
> migration, the movie cuts off at the bottom so the entire movie is not
> captured. An example can be seen in the dropbox file
> "Trackmate-Capture.AVI". Is there a way to correct this?
>
> I'm open to any suggestions on how to carry out my analysis.
>
> Thank you for your help,
> Brittany Boribong
>
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