Welcome to particle-tracker-one-d’s documentation!

This software was developed to track particles in Kymographs, eg. intensity graphs. It is based on the article Sbalzarini, Ivo F., and Petros Koumoutsakos., Journal of structural biology 151.2 (2005): 182-195 to track feature points but with the exception, that in this implementation the only noise filtering is the boxcar averaging and the frames are one dimensional. The feature points that are found are linked together by minimising a cost function and results in one or more trajectories.

From the trajectories one can easily plot the velocity auto correlation function and calculate the diffusion coefficient from either the mean squared displacement function or by a covariance based estimator.

Indices and tables