File S1 - Shape Mode Analysis Exposes Movement Patterns in Biology: Flagella and Flatworms as Case Studies

Example source code (Matlab) demonstrating the use of PCA and limit cycle reconstruction, closely following the analysis of sperm tracking data shown in Fig. 2. The reader is invited to study this code interactively. First, a pseudo data set is generated, thereby making the program independent of any data files. Then, principal component analysis is applied and shape modes and scores are displayed. A limit cycle is fitted to the resulting shape space dynamics, and the uniform phase parametrization is derived. Finally, singular value decomposition and kernel PCA are visualized.
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