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Measurement of diffusely reflecting surfaces using vortex topographic microscopy
Pola, Tomáš ; Baránek,, Michal (referee) ; Bouchal, Petr (advisor)
This thesis describes an innovative method for topographic measurement of diffuse surfaces. Tested surface is measured indirectly using nanoparticles distributed across the studied area. An image of every particle is captured by CCD camera as a double helix point spread function whose angular rotation corresponds to local surface height. Used point spread function is the result of an interference of non-diffracting vortex beams that are formed by a spiral phase mask from light originating from a nanoparticle. Diploma thesis presents an overview of current techniques for surface topography measurement. Next, working principle of proposed method is described and its experimental application is discussed. An influence of signal-to-noise ratio and image sampling on reconstruction precision is studied using numerical simulations and, as a result, optimal experimental parameters are proposed. Practical potential of the method is demonstrated by 3D reconstruction of planar and spherical surfaces in the depth range of up to 9 times the depth of focus of used microscope objective.
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The Three-Dimensional Digital Imaging Methods for X-ray Computed Tomography and Digital Holographic Microscopy
Kvasnica, Lukáš ; Číp, Ondřej (referee) ; Štarha, Pavel (referee) ; Chmelík, Radim (advisor)
This dissertation thesis deals with the methods for processing image data in X-ray microtomography and digital holographic microscopy. The work aims to achieve significant acceleration of algorithms for tomographic reconstruction and image reconstruction in holographic microscopy by means of optimization and the use of massively parallel GPU. In the field of microtomography, the new GPU (graphic processing unit) accelerated implementations of filtered back projection and back projection filtration of derived data are presented. Another presented algorithm is the orientation normalization technique and evaluation of 3D tomographic data. In the part related to holographic microscopy, the individual steps of the complete image processing procedure are described. This part introduces the new orignal technique of phase unwrapping and correction of image phase damaged by the occurrence of optical vortices in the wrapped image phase. The implementation of the methods for the compensation of the phase deformation and for tracking of cells is then described. In conclusion, there is briefly introduced the Q-PHASE software, which is the complete bundle of all the algorithms necessary for the holographic microscope control, and holographic image processing.
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Emission difference in superresolution fluorescence microscopy
Havelka, Tomáš ; Kollárová, Věra (referee) ; Bouchal, Petr (advisor)
Fluorescence microscopy finds broad applications in biological sciences as well as in technical research. Due to the complete spatial incoherence of the radiation emitted from the sample, fluorescence microscopy serves as the foundation for a range of super-resolution techniques. The bachelor's thesis is focused on the method of emission difference. This method utilizes the difference between standard and vortex image to achieve super-resolution. In this work, a q-plate is used to create the vortex image. The q-plate is a liquid crystal device that replaces costly spatial light modulators used in previous implementations of the method. The method of emission difference is described in the bachelor's thesis through theoretical calculations and numerical modeling at both the point and two-dimensional imaging levels. The experimental part of the work involves the preparation of an optical setup for the practical testing of the investigated method. The main result of the thesis is the original implementation of the method of emission difference using a q-plate and the verification of its capability to achieve super-resolution in imaging fluorescence nanoparticles.
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Measurement of diffusely reflecting surfaces using vortex topographic microscopy
Pola, Tomáš ; Baránek,, Michal (referee) ; Bouchal, Petr (advisor)
This thesis describes an innovative method for topographic measurement of diffuse surfaces. Tested surface is measured indirectly using nanoparticles distributed across the studied area. An image of every particle is captured by CCD camera as a double helix point spread function whose angular rotation corresponds to local surface height. Used point spread function is the result of an interference of non-diffracting vortex beams that are formed by a spiral phase mask from light originating from a nanoparticle. Diploma thesis presents an overview of current techniques for surface topography measurement. Next, working principle of proposed method is described and its experimental application is discussed. An influence of signal-to-noise ratio and image sampling on reconstruction precision is studied using numerical simulations and, as a result, optimal experimental parameters are proposed. Practical potential of the method is demonstrated by 3D reconstruction of planar and spherical surfaces in the depth range of up to 9 times the depth of focus of used microscope objective.
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The Three-Dimensional Digital Imaging Methods for X-ray Computed Tomography and Digital Holographic Microscopy
Kvasnica, Lukáš ; Číp, Ondřej (referee) ; Štarha, Pavel (referee) ; Chmelík, Radim (advisor)
This dissertation thesis deals with the methods for processing image data in X-ray microtomography and digital holographic microscopy. The work aims to achieve significant acceleration of algorithms for tomographic reconstruction and image reconstruction in holographic microscopy by means of optimization and the use of massively parallel GPU. In the field of microtomography, the new GPU (graphic processing unit) accelerated implementations of filtered back projection and back projection filtration of derived data are presented. Another presented algorithm is the orientation normalization technique and evaluation of 3D tomographic data. In the part related to holographic microscopy, the individual steps of the complete image processing procedure are described. This part introduces the new orignal technique of phase unwrapping and correction of image phase damaged by the occurrence of optical vortices in the wrapped image phase. The implementation of the methods for the compensation of the phase deformation and for tracking of cells is then described. In conclusion, there is briefly introduced the Q-PHASE software, which is the complete bundle of all the algorithms necessary for the holographic microscope control, and holographic image processing.
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