The diploma thesis deals with theory of imaging in a transmitted-light digital holographic microscope using partially coherent illumination. The influence of spatial and temporal coherence state on optical sectioning property is solved. The coherent transfer function is calculated. From this function imaging characteristics for a two-dimensional scattering object are derived depending on its defocus. Two different designs of microscopes developed in the Laboratory of optical microscopy in IPE FME BUT are considered.

The Human brain consists of mutually connected neuronal populations that build anatomically and functionally separated structures. To understand human brain activity and connectivity, it is crucial to describe how these structures are connected and how information is spread. Commonly used methods often work with data from scalp EEG, with a limited number of contacts, and are incapable of observing dynamic changes during cognitive processes or different behavioural states. In addition, connectivity studies almost never analyse pathological parts of the brain, which can have a crucial impact on pathology research and treatment. The aim of this work is connectivity analysis and its evolution in time during cognitive tasks using data from intracranial EEG. Physiological processes in cognitive stimulation and the local connectivity of pathology in the epileptic brain during wake and sleep were analysed. The results provide new insight into human brain physiology research. This was achieved by an innovative approach which combines connectivity methods with EEG spectral power calculation. The second part of this work focuses on seizure onset zone (SOZ) connectivity in the epileptic brain. The results describe the functional isolation of the SOZ from the surrounding tissue, which may contribute to clinical research and epilepsy treatment.

This thesis studies the relationship between the first generation biofuels and selected commodities and assets in the USA, Europe, and Brazil. It is the first attempt to combine the taxonomy and wavelet analyses in a single research application. Our unique dataset comprises 32 weekly price series covering the 2003--2015 time period. First, we employ a method of minimum spanning trees and hierarchical trees to model a biofuel-related price network. We demonstrate a development phase shift between Brazilian and the US/EU biofuel industries. We reveal a strong and stable connection between Brazilian ethanol and its main production factor, local sugarcane. We further find that US ethanol is closely linked to corn. In the contrary, European biodiesel exhibits only moderate ties to its production factors. Subsequent wavelet analysis scrutinizes the identified price connections both in time and frequency domains. Both Brazilian and US ethanols are found to be positively related to their respective feedstock commodities. In particular, feedstock proves to lead the price of the biofuel and not vice versa. Moreover, the dynamics remains qualitatively unchanged when controlled for the influence of crude oil.

Coherence-Controlled Holographic Microscope (CCHM) and a Fluorescence Holographic Microscope (FHM) were developed particularly for quantitative phase imaging and measurement of live cell dynamics, which used to be a subject of digital holographic microscopy (DHM). CCHM and FHM in low-coherence mode extend capabilities of DHM in the study of living cells. However, this advantage following from the use of low coherence is accompanied by increased sensitivity of the system to its correct alignment. Therefore, the introduction of an automatic self-correcting system is inevitable. Accordingly, in the thesis, the theory of a suitable control system is derived and the design of an automated alignment system for both microscopes is proposed and experimentally proved. The holographic signal was identified as a significant variable for guiding the alignment procedures. On this basis the original basic realignment algorithms were proposed, which encompasses the processes for initial and advanced alignment as well as for long-term maintenance of the microscope aligned state. Automated procedures were implemented in both microscopes unique set of robotic mechanisms designed and built within the frame of the thesis work. All of the procedures described in the thesis were in real experimentally proved at real microscopes in the experimental biophotonics laboratory. In addition, the control software, which contains the needed automated procedures, was developed for FHM.

Almost all life on Earth depends on the products of photosynthesis - the biochemical process whereby solar energy is stored as chemical-rich compounds. The energy of captured photons is transferred through a network of pigment-protein complexes towards the reaction center. The reaction center is responsible for trans-membrane charge separation, which generates a proton motive force which drives all subsequent biochemical reactions. The ultrafast (femtosecond) nature of the primary processes in photosynthesis is the main reason for its astonishing efficiency. On this timescale, quantum effects start to play a role and can appear in measured spectra as oscillations. It has been hypothesized that these are evidence of wave-like energy transfer. To unveil the fundamental principals of ultrafast excitation energy transfer in both natural and artificial light-harvesting systems, advanced spectroscopy techniques have been utilized. Coherent two- dimensional electronic spectroscopy is a state of the art technique which allows the most complete spectroscopic and temporal information to be extracted from the system under study. This technique has allowed us to identify a new photophysical process where the coherence of the initially excited state is shifted to the ground state upon an energy transfer step. Coherence...

The Digital Micromirror Device (DMD) technology has been developed especially for Digital Light Processing projectors, which allow the image projection. After this succesful implementation, and thanks to the commercial availibility and low initial cost of the DMD chip, a wide range of other applications became possible. Besides, it may be used in microscopy as a spatial light modulator. For example in Coherence-Controlled Holographic Microscope (CCHM) that finds its use especially for imaging and measurement of live-cell dynamic processes. The DMD chip placed in the illumination part of CCHM allows for broadening the application possibilities. Namely it could be different illumination mode experiments or tomographic applications. The master's thesis deals with the optical design of CCHM with digital optics, i. e. DMD chip. The selection of optical elements for CCHM, the experimental verification of the imaging setup and the process of designing the illumination part are described in detail. In the end, the analysis of different designs for illumination setup with the digital optics in object arm is carried out and the results are compared.

The diploma thesis provides the theoretical background needed to understand the complex topic of high dynamic range, and deals with the implementation of an innovative method for temporal video tone-mapping. At first, high dynamic range image acquisition, storage and processing are described. Afterwards, a general introduction to tone-mapping, description of undesirable image artifacts and an overview of existing state-of-the-art algorithms are presented. The part which follows focuses on the implementation of the chosen method and proposes several additional enhancements of the initially selected algorithm. Based on the information provided, an application with an intuitive graphical interface, which can be used for temporal HDR video tone-mapping, has been created. Finally, the the achieved results are demonstrated and visually compared with existing methods for temporal video tone-mapping.

The diploma thesis deals with pressure pulsations in pipeline system with dynamic muffler. There is presented original geometry of side-branch resonator. Pressure pulsations are solved by a created mathematical model, numerical simulations and verified by an experimental approach. The influence of dynamic and bulk viscosity is involved in derived governing equations. A system of nonlinear equations is solved by genetic algorithm and frequency dependent relationship of bulk viscosity of air is determined afterwards. The correct function of used pressure sensors is tested. The processing of experimental data is performed by the fast Fourier transform with coherent sampling. Finally, a comparison of analytical, numerical and experimental approaches is introduced for different geometric variants of presented muffler.

The diploma work deals with techniques of optical contactless distance and velocity measurement. A basic summary of the methods are involved. The problematic of interferometric methods for vibration measurements is analysed in detail. It contains division of interferometers, description of their function principles and also chapters dealing with elements used in interferometers such as lasers, photodetectors and elements in the ray optical way - polarizers, retarders, optical isolators. The vibration and length measurement methods are described, as well as the conception of homodyne and heterodyne detection. Part of this work focuses on the quadrature signal processing and on the proposal of algorithm for demodulation of velocity/displacement and undergoing simple motioning object deviation. This algorithm is implemented in Labview and the whole software instrument served also for visualisation of measured data of the interferometer model constructed in the laboratory. The way how to build up a model, its setting and two possible configurations suitable for homodyne detection are described. Model of interferometer is built-up on the optical breadboard. Particular components are fixed by the help of mounts. The model and software enable to measure the velocity and the vibration deviation with the light wavelength exactness. Functionality and the exactness of the laboratory model are verified by vibrometer. Effects on the measurement uncertainty are discussed here and ways how to restrain them are proposed.

Tato práce se zabývá využitím EEG dat pro výpočet mozkové konektivity a vytvořením klasifikátoru mentální zátěže. Nejdříve je popsán teoretický základ EEG, následně jsou rozebrány některé metody pro určení mozkové konektivity. Pro výpočet klasifikačních příznaků byla použita data nasnímaná během experimentu, který manipuloval s mentální zátěží ve dvou stupních. V práci je popsán průběh experimentu, zpracování a redukce nasnímaných dat, stejně jako extrakce příznaků z nasnímaných EEG dat pomocí několika metod měření konektivity (korelační funkce, kovariance, koherence a míra fázové soudržnosti) a následná automatická klasifikace třemi způsoby (na základě vzdálenosti od vzoru tvořeného průměrem, metoda nejbližšího souseda a diskriminační alanýza). Dosažené výsledky jsou detailně popsány a diskutovány. Nejlepšího výsledku (úspěšnost 60,64%) bylo dosaženo při použití kovarianční matice určené z dat získaných ze 4 elektrod z různých mozkových oblastí (beta pásmo EEG) při klasifikaci založené na lineární diskriminační funkci.