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Extract Frequency Data

Extracts X and Y positional data from the selected XML file and allows the user to visualize the results in a graphical plot.

Results Table Output

Exporting data from imageJ's result tables to the default CSV option can led to problems related to decimal case separators. If you found this error, we recommend the usage of Excel Functions, a plugin that allows trouble-free data exports to xlsx format.

Interface

Interface image

XML File

Tracking Required

Note that this function depends on the previous use of Trackmate to gather data about movement frequency, so files without them will get rejected.

Two possible files can be used here:

  1. Trackmate's whole save file
  2. Output of trackmate's Export tracks to XML file export action.

Source Video

The source video used for tracking. Ideally not the processed one, so you can set the ROIs better.

Fix Missing Spots

When tracking with Trackmate, not all frames in a video will have spots. That's because your target might not be visible in those frames. It's usually not moving as well. An uneven number of frames will create an unreliable score overall. This option fixes the missing spots by using an available adjacent spot and copying its coordinates.

There's no prejudice in setting this to True if you have a perfect tracking, with spots in all frames.

If you have only spots and no tracks, this feature won't work in this mode. It is not significant to mean out the positions of scores on each frame; thus, this checkbox gets deactivated if this is the case.

Display Plots

  • Line Chart: Composed chart to display displacement over time. Line Chart image