Abstract
In this chapter, we solve theoretical models that generateself-organized beating patterns of cilia and flagella. We present the dynamical equations for a two-dimensionalmechanical model of an axoneme that is immersed in fluid and contains two filaments subject to sliding forces by dyneins. The equations are solved using MATLAB (the code is provided) fordifferent sets of boundary conditions, motor control mechanisms (sliding control and curvature control), and mechanical and geometrical properties of axonemes (axonemal bending stiffness, doubletspacing, and axonemal length). The code outputs beating waveforms. The text guides the reader through the routines and discusses the results using two biologically relevant examples, bull sperm andChlamydomonasflagella. The reader can explore the generation of flagellar waveforms and develop an intuitive understanding of how these parameters and conditions influence the beat.
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