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Automatic improvements of images from 1D gel electrophoresis
Kovář, Martin ; Vítek, Martin (referee) ; Škutková, Helena (advisor)
In this bachelor’s thesis are explained the basic principles of electrophoresis and its modalities with focusing on 1D gel electrophoresis. It describes analysis of an electrophoreogram and causes of its possible distortion, and states specifications of applications of the method in microbiology, genomics and proteomics. The practical part presents development, optimization and outputs of a programme for automatic electrophoreogram analysis, which was created in Matlab environment. The analysis contains lane and band detection and computation of samples’ molecular weight. The ending of the thesis is constituted by evaluating efficiency of detection and accuracy of weight computation.
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Preprocessing of 1D gel electrophoresis image
Jaroš, Luboš ; Škutková, Helena (referee) ; Vítek, Martin (advisor)
Gel electrophoresis is an important method used for separation and analysis of macromolecules with electric potential. This well-established method has a big potential in medicine and science, however, the output images often suffer from distortion. This work describes several known sources of distortion and elaborates on existing methods of the track detection in gel electrophoresis. The core of this thesis introduces a new method to detect individual tracks and image pre-processing based on the standard deviation calculated on the horizontal segmentation of the image. The proposed algorithm is implemented and tested in Matlab. The success rate of the proposed method reaches 96,7 % on 35 test images of gel electrophoresis. The next phase is the band detection in the vertical profile and the binary image drawing. Although the band detection is not fully automated, a detection success rate achieves up to 86,4 % when proper setting is used.
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Hybrid Application for Calibration of Camera Lenses
Dovhalenko, Dmytro ; Malaník, Petr (referee) ; Šimek, Václav (advisor)
The goal of this bachelor’s thesis is to design and implement a tool for correction of image distortion caused by the physical curvature of a fisheye camera lens. The theoretical part is concerned with available solutions analysis in order to find an image distortion correction tool that uses modern technologies. The technologies are analyzed and described to find alternative points of view resulting in a way to change software delivery process and deliver a tool in the form of a web application. The thesis takes into account the necessity to deliver a tool that can be developed and deployed in a context of corporate environment. It focuses on the issue of generating settings for hardware-accelerated image correction since it is used more frequently in the real world than its software counterpart. The practical part analyzes various usage scenarios, suitable architecture design as well as user environment design. To achieve this, hybrid web technologies in combination with OpenCV library in the form of a web assembly, as well as other modern tools such as SSO authentication and browser’s built-in storage are used. This thesis will benefit mostly customers in need of modern image distortion calibration solutions. It proves that it is possible to use hybrid web applications to deliver native application alternative that simultaneously increases user comfort. The thesis also provides data important for transformation of native applications into hybrid web applications.
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Virtual Reality Lens Image Distortion Correction
Procházka, Tomáš ; Wilkie, Alexander (advisor) ; Horáček, Jan (referee)
Lenses in virtual reality headsets make it possible to put displays close to users' eyes and they provide users with wider field of view. However, they also distort the displayed image. Providing we know the lens distortion properties, it is possible to compensate for the distortion by displaying an image that is distorted in the opposite way. This thesis focuses on measurement of the distortion for an arbitrarily complex lens, while also considering chromatic aberration. A system capable of measuring of the distortion using just a camera attached to the virtual reality headset is designed and implemented. It is based on pattern detection and comparison of relative positions of points on the display and their correspondences in the distorted image. The result is a 2D distortion map that can be used to transform images such that they appear undistorted to the virtual reality headset users.
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Preprocessing of 1D gel electrophoresis image
Jaroš, Luboš ; Škutková, Helena (referee) ; Vítek, Martin (advisor)
Gel electrophoresis is an important method used for separation and analysis of macromolecules with electric potential. This well-established method has a big potential in medicine and science, however, the output images often suffer from distortion. This work describes several known sources of distortion and elaborates on existing methods of the track detection in gel electrophoresis. The core of this thesis introduces a new method to detect individual tracks and image pre-processing based on the standard deviation calculated on the horizontal segmentation of the image. The proposed algorithm is implemented and tested in Matlab. The success rate of the proposed method reaches 96,7 % on 35 test images of gel electrophoresis. The next phase is the band detection in the vertical profile and the binary image drawing. Although the band detection is not fully automated, a detection success rate achieves up to 86,4 % when proper setting is used.
|
|
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Automatic improvements of images from 1D gel electrophoresis
Kovář, Martin ; Vítek, Martin (referee) ; Škutková, Helena (advisor)
In this bachelor’s thesis are explained the basic principles of electrophoresis and its modalities with focusing on 1D gel electrophoresis. It describes analysis of an electrophoreogram and causes of its possible distortion, and states specifications of applications of the method in microbiology, genomics and proteomics. The practical part presents development, optimization and outputs of a programme for automatic electrophoreogram analysis, which was created in Matlab environment. The analysis contains lane and band detection and computation of samples’ molecular weight. The ending of the thesis is constituted by evaluating efficiency of detection and accuracy of weight computation.
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