Dennis Kristiansson, Adrian Lundell, Fredrik Meisingseth and David Tonderski defended their Bachelor Thesis at Chalmers University of Technology on 27 May 2020. Congrats!
Title: Deep learning for particle tracking
Abstract: The use of machine learning for classication has in recent years spread into a wide range of disciplines, amongst them the detection of particles for particle tracking on microscopy data. We modified the Python package DeepTrack, which makes use of deep learning to detect particles, creating a package called U-Track. By using a new network architecture based on a U-Net, better performance and higher computational efficiency than DeepTrack was achieved on images with multiple particles. Furthermore, functionality to track detected particles over series of frames was developed. The application of U-Track on experimental data from two-dimensional flow nanometry produced tracks consistent with theory, as well as tracking larger quantities of particles over longer periods of time compared to a digital filter based benchmark algorithm.
Supervisors: Daniel Midtvedt, Department of Physics, University of Gothenburg Examiner: Lena Falk, Department of Physics, University of Gothenburg Opponents: Patrik Wallin, Isak Pettersson, Alexei Orekhov, Anna Wisakanto
In many systems, stochastic transport deviates from the standard laws of Brownian motion. Determining the exponent α characterising anomalous diffusion and identifying the physical origin of this behaviour are crucial steps to understanding the nature of the systems under observation. However, the determination of these properties from the analysis of the measured trajectories is often difficult, especially when these trajectories are short, irregularly sampled, or switching between different behaviours.
Over the last years, several methods have been proposed to quantify anomalous diffusion and the underlying physical process, going beyond the classical calculation of the mean squared displacement. More recently, the advent of machine learning has produced a boost in the methods to quantify anomalous diffusion.
The AnDi challenge aims at bringing together a vibrating and multidisciplinary community of scientists working on this problem. The use of the same reference datasets will allow an unbiased assessment of the performance of methods for characterising anomalous diffusion from single trajectories. This Special Issue will report on these approaches and their performance.
The deadline for submissions will be 30th June 2021 and you can submit manuscripts through ScholarOne Manuscripts. All papers will be refereed according to the usual high standards of the journal.