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General idea

Eugene Katrukha edited this page Jun 18, 2026 · 3 revisions

The plugin can build a kymograph along the bending/undulating
curves/lines/filaments (think microtubules, cilia, neurites, etc).

Here is "one movie illustration" of plugin features on the growing neurites timelapse,
courtesy of @cleterrier lab:

neuron_example.mp4

For a more detailed step-by-step example, here is a timelapse recording of a growing and bending microtubule
with kinesins running along it.

example movie

You can provide a reference ROIs at different time points of the movie,
shown here (6 ROIs for 100 frames).
Usually, making reference/keyframe ROIs is an iterative process.
example movie with reference ROIs

The plugin will morph (or interpolate) ROI shapes at all intermediate frames:
example movie with interpolated ROIs

And create a kymograph along them:
kymograph

Optionally, it will output a straightened "kymograph stack":
kymograph stack output

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