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CiliaQ refers to a set of three ImageJ plugins to quantify ciliary shape, length, and fluorescence in 2D, 3D, and 4D images of cilia, acquired with a fluorescence / confocal microscope.


The software is published with the following publication:


Using and citing CiliaQ

Visit the CiliaQ GitHub repository at for more information on how to use and cite CiliaQ. In the GitHub repository you find also the CiliaQ wiki with Tutorials and a Q&A section.