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Automatic 3D segmentation of brain images
Bafrnec, Matúš ; Dorazil, Jan (referee) ; Kolařík, Martin (advisor)
This bachelor thesis describes the design and implementation of the system for automatic 3D segmentation of a brain based on convolutional neural networks. The first part is dedicated to a brief history of neural networks and a theoretical description of the functionality of convolutional neural networks. It represents a fast introduction to the problematics and provides theoretical basics needed for the understanding and creation of the system. Individual layers of the neural network and principles of their functionality and mutual relations are also described in this part. The second part of the thesis is about problem analysis, designing of a solution and a comparison between neural networks and other solutions. The result of a magnetic resonance imaging of the head is a series of black-and-white images representing a 3D scan. The task is to tag a brain and to remove unnecessary information in the form of surrounding tissues. The final image of the brain can be utilized in a volumetry or during a diagnostic of neurodegenerative diseases. The advantage of neural networks in comparison with deterministic systems is their flexibility. They allow an adaptation to other segmentation problems just by changing the training dataset, without a need of changes in the architecture. One of the systems performing fully automatic 3D segmentation is called U-Net – its name comes from the similarity of the architecture with the letter U. Three real solutions, the first implementation of U-Net, extended U-Net and recurrent U-Net were presented. The first version of U-Net has been very memory-demanding, it required a training on a processor instead of a graphic card and has not allowed data processing in full resolution. The extended U-Net has resolved these problems by loading data in overlaying series of three images. In addition to the possibility of a training on a graphic card with related decrease in learning time, the accuracy was increased by adding interconnections to the internal architecture of the network. The last version, recurrent U-Net, aims for the optimization of extended U-Net based on the reusage of existing levels. This brings a decrease in a time and resource difficulty. The number of parameters of the network was lowered to less than 20%, without any increase in case of further level addition. This network is one of first recurrent networks used on the problem of 3D segmentation and provides a foundation to further research. The last part focuses on the evaluation of results and the comparison of accuracy, speed and requirements between particular networks. The accuracy of human and machine segmentation is also compared. The extended and recurrent U-Net have surpassed their human opponent, which in real case could save a lot of doctors time and prevent human mistakes. The result of this work is a theoretical basis providing an introduction to the problematics of convolutional neural networks and segmentation, fully working systems for automatic 3D segmentation and the foundation for further research in the field of recurrent networks.
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Time series analysis using deep learning
Hladík, Jakub ; Kolařík, Martin (referee) ; Uher, Václav (advisor)
The aim of the thesis was to create a tool for time-series prediction based on deep learning. The first part of the work is a brief description of deep learning and its comparison to classical machine learning. In the next section contains brief analysis of some tools, that are already used for time-series forecasting. The last part is focused on the analysis of the problem as well as on the actual creation of the program.
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Recurrent Neural Network for Text Classification
Myška, Vojtěch ; Kolařík, Martin (referee) ; Povoda, Lukáš (advisor)
Thesis deals with the proposal of the neural networks for classification of positive and negative texts. Development took place in the Python programming language. Design of deep neural network models was performed using the Keras high-level API and the TensorFlow numerical computation library. The computations were performed using GPU with support of the CUDA architecture. The final outcome of the thesis is linguistically independent neural network model for classifying texts at character level reaching up to 93,64% accuracy. Training and testing data were provided by multilingual and Yelp databases. The simulations were performed on 1200000 English, 12000 Czech, German and Spanish texts.
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Modern anorganic foundry binder systems
Kolařík, Martin ; Rusín, Karel (referee) ; Cupák, Petr (advisor)
This bachelor thesis deals with newly developed inorganic binder systems. These are mainly developed for their ecological advantages. However, some of the discussed binder systems have better technological properties. Inorganic binder systems are described herein, both on the basis of alkaline silicates and on the basis of inorganic salts. Attention is also paid to bentonite, which is still the most commonly used binder in the world. It turns out that these binder systems will be important for the future of the foundry industry.
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Deep Learning for Text Classification
Kolařík, Martin ; Harár, Pavol (referee) ; Povoda, Lukáš (advisor)
Thesis focuses on analysis of contemporary machine learning methods used for text classification based on emotion and testing several deep neural nework architectures. Outcome of this thesis is a neural network architecture, which is tuned for using with text data and which had the best result of 79,94 percent. Proposed method is language independent and it doesn’t require as precisely classified training datasets as current methods. Training and testing datasets were consisted of short amateur movie reviews in Czech and in English. Thesis contains also overview of theoretical basics for convolutional neural networks and history of neural networks and language processing Scripts were written in Python, neural networks were simulated using Keras library and Theano framework. We used CUDA for better performance.
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Programmable MIDI Controller
Kolařík, Martin ; Lattenberg, Ivo (referee) ; Schimmel, Jiří (advisor)
This bachelor‘s thesis analyzes a designing a programmable MIDI controller. Theoretical part describes the MIDI protocol, its structure and usage. It also focuses on attributes of used components, mainly the ATmega32-16PU processor and liquid crystal display with HD44780 controller. Practical part of the project focuses on designing an electronic scheme of MIDI controller, its printed circuit board and it describes used program. For programming was used ISP programmer Biprog and as development platform Atmel studio 6.1. Finished controller is able to send MIDI message with every users action, including system messages. It is programmable using computer generated System Exclusive MIDI messages and it contains a soft-thru function.
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