Playground
Here you can find hodgepodge of scripts, presentations and other results of my work. If you find that any of the scripts does not do what it is meant to do, please do not hesitate to contact me.
Table of Contents
Presentation slides
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"Chemical dynamics and rare events in soft matter physics", TMS Symposium, Cambridge, February 2015
"Rate constants: From Sinai billiards to protein folding", Chemistry Department Alumni Festival, Cambridge, September 2014
"Simulating dynamics of rare events using discretised relaxation path sampling", Energy Landscapes Conference, Durham, August 2014
"First Passage Time Boxed Molecular Dynamics", CPGS Talk, Department of Chemistry, University of Cambridge, December 2013
"Gradient Dynamical Systems, Bifurcation Theory, Numerical Methods and Applications", Catastrophy theory seminar, Department of Chemistry, University of Cambridge, May 2013
"Universal Stability Model for Globular Proteins", X Discussions in Structural Molecular Biology, Nové Hrady, March 2012.
"Intramolecular Interactions in Globular Proteins", Diploma thesis seminar, Charles University, Prague, December 2011
"Vývoj programového vybavenia pre analýzu komplexných reakčných systémov", Student research competition, Insitutte of Chemical Technoloy, Prague, November 2011
"Bridging biophysics and bioinformatics: general trends of intramolecular interactions in globular proteins", 5th FOBIA meeting, Nové Hrady, May 2011.
"Stechiometrická analýza sietí", Diploma thesis seminar, Institute of Chemical Technology, Prague, December 2010
Posters
"Dynamics on free energy landscapes via relaxation of large kinetic transition networks", Free energy landscapes for protein folding, Zürich, poster, October 2015
"Discrete relaxation path sampling of Morse clusters", Molecular Kinetics Workshop, Berlin, poster, September 2013
"Contacts defined by interaction energy extract essential thermodynamics from structures of globular proteins", 3rd Prague Protein Spring, Prague, poster, May 2014
"First passage time boxed molecular dynamics", Molecular Kinetics Workshop, Berlin, poster, September 2013
"Balance of interactions contributing to stability of globular proteins", 2nd Prague Protein Spring, Prague, May 2012.
"Towards identification of a hydrophobic core in globular proteins", 1st Prague Protein Spring, Prague, May 2010.
"The Key to the Stabilisation of the Hydrophobic Core of Rubredoxin", Computer Simulation and Theory of Macromolecules, Huenfeld, April 2009.
Essays
"Education is what survives when what has been learned has been forgotten", essay as a part of Bakala Foundation Scholarship application
Selected blog articles
"Eggs on tracks", on inefficiency of the Slovak Rail company
"Deadly medicine fear", critics of the "Deadly medicine" article by Barlett and Steele
"Scandalous finding: more than half of the employees work for below-average salary", explanation of a simple economical principle, in Slovak only
"Marching `pro life', commentary to 2013 `pro-life' march in Košice, in Slovak only
"Nature, person and fetus", an argument against human rights for embryos, in Slovak only
Bifurcation analysis
"Bifurcation diagram of system of ordinary differential equations by continuation algorithm", documentation for the implementation of DERPAR algorithm.