National Repository of Grey Literature 3 records found  Search took 0.01 seconds. 
Calculation of vibrational SFG spectra from molecular dynamics simulations
MUSIL, Patrik
In this thesis, implementation of calculation vibrational Sum-Frequency Generation (SFG) spectra from classical molecular simulations of aqueous solutions in the O-H vibrations region is presented. The key part of the thesis was significant improvement of the original codes used by the group of Prof. Marie-Pierre Gaigeot to post-process ab initio molecular dynamics trajectories to predict vibrational SFG spectra and apply it to classical molecular dynamics simulations. Particular attention was paid to modifying and optimizing the code for processing much larger systems (number of molecules) and much longer trajectories (longer simulation times), allowing to take advantage of classical simulations to work on larges scales than the ab initio simulations. The code also integrates calculations of contributions from water O-H bonds and surface hydroxyls. As a new feature, calculation of cross-correlations among molecules was implemented. The performance of the resulting codes is verified and the influence of classical molecular simulation parameters, as well as parameters entering the SFG spectra calculations, on the calculated vibrational SFG spectra is studied for fluorite/water interface.
Molecular simulations of water - rutil interface
Hanke, Hynek ; Předota, Milan (advisor) ; Lísal, Martin (referee)
Study of structural and particularly dynamical properties of the interface of water with graphite and rutile surfaces points towards anomalous behavior of water molecules close to solid matter. Evaluation of statistical properties like translational and rotational diffusivity, residence times and autocorrelation functions of orientation vectors indicates that the translation and rotation of water molecules can be not only hindered, but also facilitated, according to the particular local density, interactions and and geometrical structure of the surface. The newly developed methods for the measurement of statistical rotational properties near to liquid-solid boundary overcomes the difficulties that are closely related to the measurement of dynamical properties in strongly inhomogeneous environment in a way, that can be applied to other model systems of this type.
Molecular simulations of water - rutil interface
Hanke, Hynek ; Předota, Milan (advisor) ; Lísal, Martin (referee)
Study of structural and particularly dynamical properties of the interface of water with graphite and rutile surfaces points towards anomalous behavior of water molecules close to solid matter. Evaluation of statistical properties like translational and rotational diffusivity, residence times and autocorrelation functions of orientation vectors indicates that the translation and rotation of water molecules can be not only hindered, but also facilitated, according to the particular local density, interactions and and geometrical structure of the surface. The newly developed methods for the measurement of statistical rotational properties near to liquid-solid boundary overcomes the difficulties that are closely related to the measurement of dynamical properties in strongly inhomogeneous environment in a way, that can be applied to other model systems of this type.

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