Student Reports

Undergraduate theses

Master theses


Y. Zaluzhnyi. Serialization and deserialization of complex data structures, and applications in high performance computing. Master thesis, MOSAIC Group, TU Dresden, 2016. (PDF)


A. Leo. Dynamic load-balancing for massively parallel hybrid particle-mesh simulations. Master thesis, Politecnico di Torino, 2016. (PDF) .


F. Pochert. Dicriminative Learning for Particle Filters in Micro-Biological Applications. Master thesis, Dresden University of Technology, Computer vision lab Dresden & MOSAIC Group, December 2015.


A. Ghaemi. Numerical simulations of bile flow in realistic image-derived bile canalicular geometries. Master thesis, Dresden University of Technology, MOSAIC Group, November 2013. (PDF)


D. Heller. Image-based Application of Spatial Statistics to Patterning of Proliferation in Wing Disc Development. Master thesis, MOSAIC Group, ETH Zürich, September 2012.


M. Graf. Simulation of the insulin pathway. Master thesis, MOSAIC Group, ETH Zürich, March 2012. (PDF)


E. Ebrahim. Energy-based image segmentation using GPGPU. Master thesis, Technische Universität München & MOSAIC Group, ETH Zurich, 2011. (PDF)


C. Häcki. A parallel anisotropic adaptive-resolution particle method for advection-diffusion simulations. Master thesis, MOSAIC Group, ETH Zurich, 2011. (PDF)


D. Zünd. Unifying zeroth- and first-order variable metric algorithms for continuous non-convex optimization. Master thesis, MOSAIC Group, ETH Zürich, October 2011. (PDF)


M. Mitrović. A multi-resolution particle method with semi-implicit discretisation for membrane dynamics simulations. Master thesis, MOSAIC Group, ETH Zürich, October 2011. (PDF)


F. Buyukkececi. Particle-mesh interpolations on GPGPU. Master thesis, Technische Universität München & MOSAIC Group, ETH Zurich, September 2011. (PDF)


M. Shann. An adaptive level-set method for reaction-diffusion systems on moving surfaces. Master thesis, MOSAIC Group, ETH Zürich, April 2011. (PDF)


M. Sutter. Computational Analysis of Spatial Point Patterns for Cell Organelles. Master thesis, MOSAIC Group, ETH Zurich, 2010. (PDF)


M. König. Design and Implementation of Parallel Island Models for CMA-ES. Master thesis, MOSAIC Group, ETH Zurich, 2010. (PDF)


H. Gumpert. Spatial Dynamics Modeling of Viral Infection using Cellular Automata and Particle Strength Exchange. Master thesis, MOSAIC Group, ETH Zurich, 2010. (PDF)


C. Fiegl. Statistical analysis of fitness values in CMA-ES. Master thesis, MOSAIC Group, ETH Zurich, 2009. (PDF)


A. Rinck. Bioinformatical analysis of extraordinarily large, prokaryotic proteins. Master thesis, INSERM Paris, ETH Zürich, and TU Munich, February 2009. (PDF)


O. Awile. Structural adaptation of nudix hydrolase in the desiccation resistant bacterium deinococcus radiodurans. Master thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2008. (PDF)


G. Schneider. Event-based prediction of the foreign exchange market using news text classification. Master thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2008. (PDF)


M. Vens. Towards a prediction model of morphological changes during suborgan structure development. Master thesis, University of Lübeck, Institute of Mathematics, and ETH Zürich, Computational Biophysics Lab (CBL) and Institute of Biochemistry, 2007. (PDF)


J. Cardinale. Image-based analysis of cell division. Master thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2007. (PDF)


F. Gemperle. Stochastic and Physical Dynamical Models of Virus Motility. Master thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2007. (PDF)


Diploma theses


T. Nett. Extensions and improvements for the Parallel Particle Mesh Environment. Diploma thesis, TU Dresden, Faculty of Computer Science, 2016. (PDF)


F. Multrus. Calculation of the electric potential for a neuronal activity model in the brain. Diploma thesis, MOSAIC Group, TU Dresden, 2014. (PDF)


C. Bläsche. Setting Young’s modulus in the subcellular element model. Diploma thesis, Dresden University of Technology, MOSAIC Group, 2014. (PDF)


K. Philipp. Piecewise smooth deconvolving segmentation. Diploma thesis, Dresden University of Technology, MOSAIC Group, April 2013. (PDF)


M. Maag. Tracking cells in phase contrast light microscopic images. Diploma thesis, MOSAIC Group, ETH Zürich, Feruary 2010. (PDF)


G. Ofenbeck. CMA-ES and its application to potential energy landscapes. Diploma thesis, MOSAIC Group, ETH Zurich, 2009. (PDF)


F. Serban. Software for efficient quantification of FRAP experiments. Diploma thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2008. (PDF)


B. Baumgartner. Particle swarm CMA-ES. Diploma thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2008. (PDF)


A. Tušek. Parameter sensitivity analysis of TCR activated signal transduction netwroks. Diploma thesis 4538/BI, University of Zagreb, Faculty of Food Technology and Biotechnology and Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2007. (PDF)


S. Dinser. Investigating the influence of optical anisotropy in microscopy. Diploma thesis, Institute of Computational Science (ICoS), ETH Zürich, 2004. (PDF)


I. Oppermann. A boundary integral solver for the parallel particle mesh library & An implementation of the CHARMS framework. Diploma thesis, Institute of Computational Science (ICoS), ETH Zürich, 2004. (PDF)


Bachelor theses


S. Semmler. Fast region competition in ImageJ. Bachelor thesis, MOSAIC Group, ETH Zürich, 2012. (PDF, Software Download)


J. Bohnes. PPM WebCG: A visual programming environment for PPM. Bachelor thesis, MOSAIC Group, ETH Zürich, 2012. (PDF, Software Download)


M. Bircher. Solving the inverse problem in EEG source localization using SVM. Bachelor thesis, MOSAIC Group, ETH Zürich, 2011. (PDF)


R. Bärtschi. Parameter selection using evolutionary strategies in ImageJ. Bachelor thesis, MOSAIC Group, ETH Zürich, 2011. (PDF, ImageJ plugin Download)


R. Racine. Estimating the Hurst exponent. Bachelor thesis, MOSAIC Group, ETH Zürich, 2011. (PDF, source code (ZIP))


R. Gehrig. Atomistic molecular dynamics simulation of 2-component Newton black films. Bachelor thesis, MOSAIC Group, ETH Zurich, 2008.


R. Bauer. Systems identification of an impossible system: An empirical study of models for stock market prediction. Bachelor thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2007. (PDF)


A. Weber. Feature point tracking based on a recursive Bayesian method. Bachelor thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2007. (PDF)


Semester theses


F. Knorr. Classification of sleep stages using functional magnetic resonance imaging (fMRI) and sparse classifiers. Semester thesis, MOSAIC Group, Faculty of Computer Science, TU Dresden, 2015. (PDF)


R. Hellmüller. Checkpoint/restart of massively parallel simulations. Semester thesis, MOSAIC Group, ETH Zürich, 2011. (PDF)


I. Radman. Diffusion in the ribosomal tunnel – geometric impacts of the tunnel. Semester thesis, MOSAIC Group, ETH Zürich, 2010. (PDF)


R. Speck. Classification of anaesthesia data using support vector machines. Semester thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2008. (PDF)


Y. Misteli. Global Suppressor Mutations (GSM) in terms of structural and physico-chemical properties and implications for future projects. Semester thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2007. (PDF)


O. Awile. Pre-fractal structure of the ER. Semester thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2007. (PDF)


J. C. Lederer. Parameter sensitivity analysis and optimization of an agent based psychological model. Semester thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2007. (PDF)


G. Schneider. Systems identification of an impossible system: An empirical study of models for stock market prediction. Semester thesis, Computational Biophysics Lab (CBL), Institute of Computational Science (ICoS), ETH Zürich, 2007.
(PDF)


B. Polasek. A fast multipole method (FMM) implementation for the parallel particle mesh library (PPM). Semester thesis, Institute of Computational Science, 2005. (PDF)


J. Helmuth. Data analysis and machine learning for virus trajectories. Semester thesis, Institute of Computational Science (ICoS), ETH Zürich, 2005. (PDF)


R. Marti. GUI client for a remote particle tracking server. Semester thesis, Institute of Computational Science (ICoS), ETH Zürich, 2004. (PDF)


I. Oppermann. Image processing and particle tracking for biological applications. Semester thesis, Institute of Computational Science (ICoS), ETH Zürich, 2003. (PDF)


S. Dinser. Automatic data encoding optimization for machine learning applications. Semester thesis, Institute of Computational Science (ICoS), ETH Zürich, 2003.


A. Fenkart. Data mining and machine learning for virus trajectory analysis. Semester thesis, Institute of Computational Science (ICoS), ETH Zürich, 2003. (PDF)