TrackMate-TrackAnalysis extension

fiji
trackmate

#1

I have tried to install the track analysis extension for TrackMate to include

  • TOTAL_DISTANCE_TRAVELED
  • MAX_DISTANCE_TRAVELED
  • TRACK_CONFINMENT_RATIO
  • MEAN_STRAIGHT_LINE_SPEED
  • LINEARITY_OF_FORWARD_PROGRESSION
  • MEAN_DIRECTIONAL_CHANGE_RATE
    but it does not appear to recognise the extension, as the track statistics I get after I run Trackmate have not changed; I still get the same output. Is there something I miss?

#2

@Paschalia

How exactly did you do the installation?

From what I gather… you need to:

  1. Download the Track Analysis extension
  2. Add that .jar file to your Fiji.app/jars folder
  3. Restart Fiji.

TrackMate will recognize the extra modules and will integrate them in the plugin.

Just try to reinstall it once again… if it’s still not working - report back exactly how you did your installation and the subsequent steps, etc.

eta

Too - make sure to scroll all the way to the end of your “Track statistics” table… when I do the above steps - those extra measures are there.


#3

Thank you very much for the attachment. It seems I had downloaded the wrong file from Github. It works fine now.


#4

@Paschalia

Hi there,

I’m interested in using this extension - however, from the Github page, I can’t seem to find any definitions for these analysed parameters?

Some of them are self explanatory to me, however, I would like to know how mean direction change rate is defined in this instance.

Do you know where I can find this information?

Thanks!


#5

True, I did not write it yet and sorely miss the time to do so.
You will have to rely on the code in the meantime.