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Noise and artifact suppression in fMRI data based on multi-echo data and independent component analysis
Pospíšil, Jan ; Gajdoš, Martin (referee) ; Mikl, Michal (advisor)
The main task of this work is to design an algorithm for suppressing unwanted noise and artifacts in fMRI data using the analysis of independent components and multi-echo data. The theoretical part deals with the basic principles of magnetic resonance, including construction and image data processing. The practical part presents a pilot design of a method inspired by a professional publication in the Matlab software environment, where this design is subsequently tested on real fMRI data provided by the Laboratory of Multimodal and Functional Imaging, CEITEC MU.
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Formation, Functionalization and Characterization of 2D Materials on Crystalline Supports
López-Roso Redondo, Jesús Rubén ; Švec, Martin (advisor) ; Gonzáles Pascual, César (referee) ; Mysliveček, Josef (referee)
In this thesis, the growth of 2D materials, in particular graphene and FeO2 on crystalline supports, is studied by a multitude of surface-sensitive techniques. The mechanisms of graphene growth in ultra-high vacuum and high Ar pressure are explored, and a simple device for the manufacturing of high-quality, monocrystalline graphene on SiC is described. The electronic and chemical properties of B and N dopants on graphene are characterized by means of STM/AFM with CO-functionalized tips and supported by DFT calculations. The chemical interaction of a probe molecule (FePc) with doped graphene is also investigated. The long-standing controversy of the so-called "biphase" reconstruction of α - Fe2O3(0001) is resolved by the discovery of a complete FeO2 overlayer in this phase. The structure of this overlayer is investigated by means of STM, LEEM and DFT calculations. A thorough description of the routes to obtain single phases over the whole surface of α - Fe2O3(0001) is provided.
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Use of a special optical fiber in an electron microscope chamber
Černek, Ondrej ; Konečný, Martin (referee) ; Pavera, Michal (advisor)
This bachelor thesis is concerned about the modification of vacuum chamber of the Scanning Electron Microscope VEGA developed by TESCAN Brno s.r.o. in order to implementation of Scanning Probe Microscope. Moreover, it is dedicated to development of apparatus for using hollow optical fiber allowing the guidance of light and various gases on the sample surface placed in the vacuum of electron microscope. By using the hollow optical fiber as a probe of Scanning Probe Microscope, it is possible to work with a tip with specific properties. A brief introduction to Scanning Electron Microscopy and Atomic Force Microscopy is presented in the theoretical part. Furthermore, there is a technique of using optical fibers in Scanning Near-field Optical Microscopy described. Also a problem of vacuum systems, gas flow through the pipe and technique of Gas Injection System is introduced. In the construction part, there are initiated steps in the development of the vacuum chamber and the apparatus allowing the guidance of hollow optical fiber into the chamber of microscope. The experimental part presents the result of measurements obtained by probe of Scanning Probe Microscope with modified optical fiber and gas transmissivity of hollow optical fiber.
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Mechanical excitation of self sensing SPM probes
Novotný, Ondřej ; Piastek, Jakub (referee) ; Pavera, Michal (advisor)
This bachelor thesis deals with the development of the SPM microscope probe holder which is designed for mechanical excitation of the probes. The first part of the thesis focuses on the description of physical theory, such as the principle of atomic force microscopy, the function of piezoceramics and the description of used quartz tunning fork based probes. The second part describes the gradual development and design of the new probe holder. Testing of the designed probe holder and comparison of mechanical and electric excitation is depicted at the end of this work. The designed probe holder was manufactured, the assembly procedure was described, and the drawings of the individual parts were created.
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Local electrical conductivity measurements in AFM tapping mode
Dao, Radek ; Konečný, Martin (referee) ; Pavera, Michal (advisor)
This bachelor thesis is concerned about the development of a probe for local electrical conductivity measurements in tapping mode Atomic Force Microscopy. The teoretical part gives a short overview of Scanning Probe Microscopy techniques, with the focus being on Conductivity Atomic Force Microscopy. Furthermore, the measuring regime in which the probe operates is described here, as well as the basic component of the probe, the quartz tuning fork. The experimental part follows the iterative development process, and contains a chapter dedicated to making of very sharp tips. The final chapters describe the preparation of test samples, which were used to prove the functionality of the probe and the measurement of local electrical conductivity itself.
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Assemblage and testing of the device for water ozonizing and its application for silicon wafer cleaning
Ředina, Dalibor ; Mikulík, Petr (referee) ; Voborný, Stanislav (advisor)
Deionised-ozonated water, so-called DIO3 appears to be an ideal alternative for usage in semiconductor industry. The utilisation of DIO3 for removal of photoresist from silicon wafers is faster, cheaper, and more environmental-friendly compared to classical technology based on mixture of sulphuric acid with hydrogen peroxide, so-called SPM. The diploma thesis deals firstly with research into ozone and ozonated water and their possible applications. Next sections describe two prototypes of generators for DIO3, that were assembled in CSVG a.s. Testing of parameters for generators on dissolved-ozone concentration is also a part of this thesis. Moreover, thesis involves tests, that were carrier out in ON Semiconductor in Rožnov pod Radhoštěm. These tests compare efficiency of cleaning by classical technology based on SPM and DIO3 approach.
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Preparation and testing of SNOM probes
Bobek, Juraj ; Pavera, Michal (referee) ; Spousta, Jiří (advisor)
The area of research that deals with surface modification and preparation of nanostructures is still very unexplored. And only a little contribution to this field is discussed in this bachelor thesis. Its goal is to manufacture and to test a probe made off hollow optical fibre that is used in Scanning Probe Microscopy. Optical fibre parameters in combination with proper and unique techniques allow the breakthrough off very interesting applications. It's worth mentioning the gas injection in the proximity of the surface of a sample (GIS) and thus its modification by use of electrons (FEBID), ions (FIBID) or laser beams.
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Correlates finding of heart rate changes in fMRI data
Jurečková, Kateřina ; Gajdoš, Martin (referee) ; Bartoň, Marek (advisor)
This master’s thesis deals with problematic of correlates finding of heart rate changes in fMRI data. The first part describes principle of fMRI, creation of BOLD signal, data acquisition, their pre-processing and analysis. The next part describes heart rate variability and its impact on fMRI data. The following section is dedicated to pre-processing of heart rate time series to the form, which can be used in correlates finding of heart rate variability and fMRI data with generalized linear model. The process of statistical testing and its result with discussion can be found in the last part of this thesis.
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Linear and nonlinear phenomena in optical access networks
Valášek, Martin ; Münster, Petr (referee) ; Šifta, Radim (advisor)
The aim of this thesis is an explanation of the problem linear and nonlinear phenomena in optical access networks. In the first chapter refers to a description of the optical fiber, description of the optical environment and the main part is theoretical and mathematical description of phenomena that operate in optical fibers. It is therefore a specific attenuation, dispersion, phenomena of second and third-order, nonlinear light scattering and solitons. Then there is the dismantling brief overview of the distribution of access networks and their description. The second part deals with specific simulation of these phenomena in the simulation program OptSim 5.2. All connections will be implemented in the block diagram Sample-Mode, in which using appropriate units and setting the right parameters, we will try to confirm the theoretical assumptions of the first part.
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Toolbox for neuronal datasets
Malý, Lukáš ; Harabiš, Vratislav (referee) ; Lamoš, Martin (advisor)
The aim of this bachelor's thesis was to create toolbox for functional magnetic resonance (fMRI) and electroencefalography (EEG) data processing in MATLAB enviroment using SPM software package. The first part describes the physiological origin of these data at neuronal level, basics of magnetic resonance imaging, principles of fMRI experiment, preprocessing and processing of fMRI data, their interpretation, then function and principles of EEG are described and at the end is simultaneous EEG-fMRI described. In the second part of the thesis features of each tool from Neural Data Toolbox (NDTb) are described.
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