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Undergraduate students

MSc students

Zdeněk Hruška
Thesis topic: Adaptation of crowd motion simulations for simulations of live cell populations
Defence year: 2015 Supervisor: Vladimír Ulman

Juraj Duráni
Thesis topic: Face detection of entering persons in the video record
Defence year: 2014, defended Supervisor: Vladimír Ulman

Karel Kříž
Thesis topic: Detection of vehicles and evaluation of their states in videosequences acquired from crossroads
Defence year: 2014, defended Supervisor: David Svoboda

Vladimír Varga
Thesis topic: Implementation of the method of Fleet and Jepson for optical flow computation
Defence year: 2014, defended Supervisor: Vladimír Ulman

Pavel Pátek
Thesis topic: Application of MPEG-7 descriptors when analyzing 3D biomedical image data
Defence year: 2013, defended Supervisor: David Svoboda

Jan Sládek
Thesis topic: Higher-Order Active Contours
Defence year: 2013 Supervisor: Pavel Matula

Marek Podešva
Thesis topic: Optimal segmentation of touching round objects
Defence year: 2013 Supervisor: Pavel Matula

Vlastimil Jeřábek
Thesis topic: Automation of manuscript reconstruction
Defence year: 2013 Supervisor: Pavel Matula

Elena Bastrikova
Thesis topic: Image Segmentation Using B-Spline Active Contours
Defence year: 2012, defended Supervisor: Pavel Matula

Ivo Peterka
Thesis topic: Processing and visualization of geophysical data in archeology
Defence year: 2012, defended Supervisor: Pavel Matula

Ondřej Rabiška
Thesis topic: Cell nuclei segmentation in confocal microscope images
Defence year: 2012, defended Supervisor: Pavel Matula

Pavel Eleder
Thesis topic: Analysis of interaction of apoptotic proteins AIF and endonuclease G with nuclear proteins during chromatin degradation
Defence year: 2012, defended Supervisor: Miroslav Vařecha

Pavol Paučula
Thesis topic: Motion analysis of cockroaches in magnetic field
Defence year: 2012, defended Supervisor: Pavel Matula

Tomáš Kotula
Thesis topic: SIFT for 3D biomedical tracking
Defence year: 2012, defended Supervisor: Vladimír Ulman

Jana Tomšů
Thesis topic: Digital Processing Of Music Scores
Defence year: 2012 Supervisor: Pavel Karas

Lukáš Skovajsa
Thesis topic: GPU-Based Implementation Of Diffusion Filters
Defence year: 2011, defended Supervisor: Pavel Karas, Pavel Matula

Karel Štěpka
Thesis topic: Automatic cell counting in Bürker chamber
Defence year: 2010, defended Supervisor: Pavel Matula

Michal Oravec
Thesis topic: Methods for checking the similarity of edge images
Defence year: 2010, defended Supervisor: David Svoboda

Roman Stoklasa
Thesis topic: Road Detection
Defence year: 2010, defended Supervisor: Petr Matula

Stanislav Straka
Thesis topic: Minimization of Chan-Vese functional using graph cuts
Defence year: 2010, defended Supervisor: Ondřej Daněk

Tomáš Majtner
Thesis topic: Image compression
Defence year: 2010, defended Supervisor: David Svoboda

Anna Ogrocká
Thesis topic: In vivo analysis of telomere dynamics in cells with different mechanisms of lengthening of telomeres
Defence year: 2009, defended Supervisor: Jana Amrichová

Daniela Páclová
Thesis topic: Function, release, and interactions of apoptotic mitochondrial proteins AIF and endonuclease G
Defence year: 2009, defended Supervisor: Miroslav Vařecha

Martin Janík
Thesis topic: Automatic processing of 2D orthopaedic data
Defence year: 2009, defended Supervisor: Pavel Matula

Ondřej Homola
Thesis topic: Generation of phantom biomedical image data
Defence year: 2009, defended Supervisor: David Svoboda

Pavel Černohorský
Thesis topic: Segmentation of fluorescently stained cells
Defence year: 2009, defended Supervisor: Pavel Matula

František Feichtinger
Thesis topic: Parametric studies of segmentation methods
Defence year: 2008, defended Supervisor: Pavel Matula

Jan Havelka
Thesis topic: Nonlinear edge detectors
Defence year: 2008, defended Supervisor: David Svoboda

Michaela Potěšilová
Thesis topic: CD34+ cells gene expression profiling of patients with CML
Defence year: 2008, defended Supervisor: Irena Koutná

Lenka Tesařová
Thesis topic: Expression profiling of CD34+ progenitor cells isolated from peripheral blood of patients with lymphoma during ex vivo differentiation
Defence year: 2007, defended Supervisor: Irena Koutná

Štěpán Šrubař
Thesis topic: Analysis of spectral image data
Defence year: 2007, defended Supervisor: Michal Kozubek

Martin Halamíček
Thesis topic: Granulometry of biomedical images
Defence year: 2007, defended Supervisor: Pavel Matula

Michal Bříza
Thesis topic: Estimation of geometric properties of digital objects
Defence year: 2007, defended Supervisor: Pavel Matula

Ondřej Daněk
Thesis topic: Voxel-based image registration of cells
Defence year: 2007, defended Supervisor: Petr Matula

Pavlína Havlíková
Thesis topic: Analysis of telomere dynamics in vivo
Defence year: 2007, defended Supervisor: Jana Amrichová

Zděněk Ručka
Thesis topic: Genomic profiling of pulmonary malignances
Defence year: 2007, defended Supervisor: Irena Koutná

Jan Orel
Thesis topic: Deconvolution of biomedical images in digital microscopy
Defence year: 2006, defended Supervisor: Michal Kozubek

Martin Maška
Thesis topic: Image Segmentation Using Fast Approximation of Implicit Active Surfaces
Defence year: 2006, defended Supervisor: Jan Hubený

Michal Zimmermann
Thesis topic: Fluorescence methods used to study the processes in mammalian cells in vivo
Defence year: 2006, defended Supervisor: Miroslav Vařecha

Petra Venigová
Thesis topic: The comparative topography of telomeres in human cells with different lengthening mechanism
Defence year: 2006, defended Supervisor: Jana Amrichová

Stanislav Stejskal
Thesis topic: Epigenetically regulated changes of gene expression in malignant deseases
Defence year: 2006, defended Supervisor: Irena Koutná

Zdeněk Hrnčír
Thesis topic: Computation of optic flow by using differential methods of Horn&Schunk and Lucas&Kanade.
Defence year: 2006, defended Supervisor: Vladimír Ulman

Daša Medříková
Thesis topic: Topography of telomeres in human cell nuclei
Defence year: 2005, defended Supervisor: Jana Amrichová

Jakub Kulaviak
Thesis topic: Modelling and optimization of the light throughput in an optical set-up
Defence year: 2005, defended Supervisor: Michal Kozubek

Jakub Zemánek
Thesis topic: Extremely small objects segmentation in biomedical images
Defence year: 2005, defended Supervisor: Michal Kozubek

Jiří Cvachovec
Thesis topic: Elastic registration in micro-axial tomography
Defence year: 2005, defended Supervisor: Petr Matula

Marek Kašík
Thesis topic: Dual active contours, Image segmentation
Defence year: 2005, defended Supervisor: David Svoboda

Petr Krontorád
Thesis topic: Segmentation of images aquired by DNA microarrays scaner
Defence year: 2005, defended Supervisor: Michal Kozubek

Tomáš Smetana
Thesis topic: Pattern recognition in biomedical images using support vector machines
Defence year: 2005, defended Supervisor: Michal Kozubek

Vladimír Dvořák
Thesis topic: 3D Point-pattern matching
Defence year: 2005, defended Supervisor: Petr Matula

Zbyněk Svoboda
Thesis topic: Normalization methods in the processing of DNA microarrays
Defence year: 2005, defended Supervisor: Michal Kozubek

Jan Hubený
Thesis topic: 3D object segmentation using level-set methods
Defence year: 2004, defended Supervisor: Pavel Matula

Marek Winkler
Thesis topic: Pattern recognition in biomedical images using neural networks
Defence year: 2004, defended Supervisor: Michal Kozubek

Pavel Rotek
Thesis topic: Cells and chromosomes segmentation using Voronoi diagrams
Defence year: 2004, defended Supervisor: Michal Kozubek

Silvie Křivánková
Thesis topic: Cell segmentation in biomedical images using genetic algorithms
Defence year: 2004, defended Supervisor: Michal Kozubek

Veronika Křížová
Thesis topic: Data aproximation with algebraic surfaces
Defence year: 2004, defended Supervisor: Pavel Matula

Silvie Dudová
Thesis topic: Comparsion of the topographic parameters of centromeres and telomeres in interphase nuclei of human blood cells using FISH
Defence year: 2003, defended Supervisor: Magdalena Skalníková

Tomáš Darmovzal
Thesis topic: Implicit surfaces, Simplex meshes
Defence year: 2003, defended Supervisor: David Svoboda

Ivo Kočvara
Thesis topic: Compression of biomedical images using wavelet transform
Defence year: 2002, defended Supervisor: Petr Matula

Jiří Hegr
Thesis topic: Surface reconstruction using DMS splines
Defence year: 2002, defended Supervisor: Pavel Matula

Václav Krpec
Thesis topic: Application of Hough transform on biomedical images
Defence year: 2002, defended Supervisor: Petr Matula

David Svoboda
Thesis topic: Application of deformable models in biomedical image analysis
Defence year: 2001, defended Supervisor: Pavel Matula

Jiří Stibor
Thesis topic: Finding groups of chromosomes in a digital image
Defence year: 2001, defended Supervisor: Michal Kozubek

Miroslav Hebký
Thesis topic: Segmentation algorithm watershed and its visualization
Defence year: 2001, defended Supervisor: Michal Kozubek

Pavel Hložek
Thesis topic: Mapping of topographic parameters of interphase chromosomes in human cell nuclei and relation between these parameters and level of gene expression
Defence year: 2001, defended Supervisor: Stanislav Kozubek, Irena Koutná

Radim Chlad
Thesis topic: Segmentation of cell nuclei with active contours
Defence year: 2001, defended Supervisor: Pavel Matula

Marek Matuš
Thesis topic: Deconvolution of biomedical images in digital microscopy
Defence year: 2000, defended Supervisor: Michal Kozubek

BSc students

Miroslav Krajíček
Thesis topic: Tracking of point sets observed with calibrated cameras in 3D
Defence year: 2015 Supervisor: Vladimír Ulman

Jozef Marko
Thesis topic: Development of patient ordering terminal for the Department of Orthopaedics FN Bohunice
Defence year: 2014, defended Supervisor: Vladimír Ulman

Peter Chriašteľ
Thesis topic: Rotation of very extensive images per partes
Defence year: 2014, defended Supervisor: Vladimír Ulman

Ludvík Hájek
Thesis topic: Adaptive monitor darkening in laptops with built-in webcam
Defence year: 2014 Supervisor: David Svoboda

Jan Sedlák
Thesis topic: Educational application for PA166 course
Defence year: 2013, defended Supervisor: Pavel Matula

Luděk Matyska
Thesis topic: Simulation of Optical Aberrations in Confocal Microscopy
Defence year: 2013, defended Supervisor: David Svoboda

Martin Vlach
Thesis topic: Measurement of Cardiac Rhythm Using Video Analysis
Defence year: 2013, defended Supervisor: Pavel Matula

Petr Sečkář
Thesis topic: E-learning tool for Fourier transform
Defence year: 2013, defended Supervisor: David Svoboda

Tomáš Tauer
Thesis topic: Graphical user interface for manipulation with wide networks
Defence year: 2013, defended Supervisor: David Svoboda

Andrej Krejčír
Thesis topic: Image reconstruction in digital holographic microscopy on GPU
Defence year: 2013 Supervisor: Pavel Matula, Pavel Karas

Jan Polišenský
Thesis topic: SW for AD convertor NI USB-6210
Defence year: 2012, defended Supervisor: Pavel Matula

Jozef Triščík
Thesis topic: A New Graphical Interface for Preparation of Input to the Live Cell Simulator
Defence year: 2012, defended Supervisor: Vladimír Ulman

Zdeněk Hruška
Thesis topic: Image Registration of Slices of Histological Specimen
Defence year: 2012, defended Supervisor: Vladimír Ulman

David Wiesner
Thesis topic: GPU-Based Implementation Of Certain Subroutines Of An Optical Flow Computation
Defence year: 2012 Supervisor: Pavel Karas, Vladimír Ulman

Jan Juráň
Thesis topic: The Optimization of Convolution Process of Huge Multidimensional Image Data
Defence year: 2011, defended Supervisor: David Svoboda

Maroš Gonda
Thesis topic: Data Formats PNG and HDF5 and Their Use When Manipulating Biomedical Image Data
Defence year: 2011, defended Supervisor: Pavel Karas, David Svoboda

Petra Mazancová
Thesis topic: Alternative functions of proteins AIF and endonuclease G
Defence year: 2011, defended Supervisor: Miroslav Vařecha

František Veverka
Thesis topic: Displaying of information about acquired images in Acquiarium software
Defence year: 2010, defended Supervisor: Pavel Matula

Jan Urban
Thesis topic: Connecting Morph-M into Matlab using SWIG
Defence year: 2010, defended Supervisor: Petr Matula

Jana Matějková
Thesis topic: Texture descriptors for biomedical image data
Defence year: 2010, defended Supervisor: David Svoboda

Josef Pacula
Thesis topic: Connecting Morph-M into Matlab using SWIG
Defence year: 2010, defended Supervisor: Petr Matula

Martin Kuric
Thesis topic: Embedding of a 3D image viewer into Matlab
Defence year: 2010, defended Supervisor: Petr Matula

Matúš Kotry
Thesis topic: Cell nuclei segmentation by ellipse fitting
Defence year: 2010, defended Supervisor: Pavel Matula

Tomáš Šlimar
Thesis topic: Correction of uneven illumination
Defence year: 2010, defended Supervisor: Pavel Matula

Miroslav Pokorný
Thesis topic: Dummy Acquiarium driver for HW simulation
Defence year: 2009, defended Supervisor: Pavel Matula

Pavel Eleder
Thesis topic: Interactions of apoptotic mitochondrial proteins AIF and endonuclease G with nuclear proteins during chromatin degradation
Defence year: 2009, defended Supervisor: Miroslav Vařecha

Jan Brodina
Thesis topic: Effective implementation of basic morphological operations
Defence year: 2008, defended Supervisor: Petr Matula

Jan Knotek
Thesis topic: Collocalization plug-ins for Acquiarium
Defence year: 2008, defended Supervisor: Pavel Matula

Marek Vinkler
Thesis topic: C++ library for visualisation of basic models of digital geometry
Defence year: 2008, defended Supervisor: Pavel Matula

Andor Pathó
Thesis topic: Connecting i3dlib library to Matlab
Defence year: 2007, defended Supervisor: Pavel Matula

Anna Ogrocká
Thesis topic: Analysis of alternative mechanism of telomere lengthening (ALT)
Defence year: 2007, defended Supervisor: Jana Amrichová

Daniela Páclová
Thesis topic: Post-transcription gene silencing using siRNA
Defence year: 2007, defended Supervisor: Miroslav Vařecha

Jakub Grochol
Thesis topic: 3D biomedical image data manipulation
Defence year: 2007, defended Supervisor: David Svoboda

Magdalena Dvořáková
Thesis topic: Basic principles and utilization of quantitative PCR with respect to oncology diagnostics
Defence year: 2007, defended Supervisor: Irena Koutná

Tomáš Skoupil
Thesis topic: 3D surface reconstruction using PowerCrust algorithm
Defence year: 2007, defended Supervisor: Petr Matula

Daniel Balík
Thesis topic: 3D Reconstruction and Visualization of Dental Lamina
Defence year: 2006, defended Supervisor: Petr Matula

Jan Havelka
Thesis topic: Distance transform algorithms, Optimization
Defence year: 2006, defended Supervisor: Jan Hubený, David Svoboda

Jana Pospíšilová
Thesis topic: Primary cell cultures
Defence year: 2006, defended Supervisor: Irena Koutná

Lenka Holeková
Thesis topic: Implementation of BM3D algorithm
Defence year: 2006, defended Supervisor: Petr Matula

Lukáš Riedel
Thesis topic: Smoothing of binary objects
Defence year: 2006, defended Supervisor: Pavel Matula

Michaela Křížová
Thesis topic: Main markers of epigenetic regulation and their visualization
Defence year: 2006, defended Supervisor: Irena Koutná

František Feichtinger
Thesis topic: Module for entering cross-sections
Defence year: 2005, defended Supervisor: Petr Matula

Lenka Tesařová
Thesis topic: Processing of biological material for cDNA microarrays
Defence year: 2005, defended Supervisor: Irena Koutná

Martin Juránek
Thesis topic: Implementation of chromatic aberration correction algorithm in C/C++
Defence year: 2005, defended Supervisor: Petr Matula

Pavel Rajňačok
Thesis topic: C++ vector graphics library
Defence year: 2005, defended Supervisor: Pavel Matula

Vojtěch Štursa
Thesis topic: Improvements of volumetric image viewer
Defence year: 2005, defended Supervisor: Petr Matula

Zdeněk Ručka
Thesis topic: Trends and posibilities of DNA microarrays
Defence year: 2005, defended Supervisor: Irena Koutná

Martin Maška
Thesis topic: Archive/Restore module for Fish 3.0 system
Defence year: 2004, defended Supervisor: Pavel Matula

Michal Zimmermann
Thesis topic: Preparation and use of fluorescent fusion proteins in cell biology
Defence year: 2004, defended Supervisor: Miroslav Vařecha

Ondřej Daněk
Thesis topic: Improvements of volumetric image viewer
Defence year: 2004, defended Supervisor: Petr Matula

Pavel Holec
Thesis topic: Automatic cutting of movies
Defence year: 2004, defended Supervisor: Petr Matula

Petr Černoch
Thesis topic: Overview of software for image analysis and processing in optical microskopy
Defence year: 2004, defended Supervisor: David Svoboda

Radim Klapka
Thesis topic: Fluorescence in situ hybridization
Defence year: 2004, defended Supervisor: Miroslav Vařecha

Stanislav Stejskal
Thesis topic: The effect of methylation on the chromatin structure
Defence year: 2004, defended Supervisor: Magdalena Skalníková

Zdeněk Hrnčíř
Thesis topic: Library for the computation of 3D-object characteristics
Defence year: 2004, defended Supervisor: Jiří Stibor

Aleš Vlček
Thesis topic: Overview of software respecting computing geometry problems
Defence year: 2003, defended Supervisor: David Svoboda

Bedřich Michálek
Thesis topic: Development of software for digital image processing practicals
Defence year: 2003, defended Supervisor: Michal Kozubek

Denisa Píšová
Thesis topic: Overview of software usable for volumetrical data reconstruction and visualization
Defence year: 2003, defended Supervisor: Pavel Matula

Jakub Kulaviak
Thesis topic: Development of software for digital image processing practicals
Defence year: 2003, defended Supervisor: Michal Kozubek

Lucie Špičková
Thesis topic: Overview of image registration software packages
Defence year: 2003, defended Supervisor: Petr Matula

Marek Kašík
Thesis topic: 3D edge detection
Defence year: 2003, defended Supervisor: David Svoboda

Milan Fikar
Thesis topic: Reservation software for the Laboratory of Optical Microscopy
Defence year: 2003, defended Supervisor: Jiří Stibor

Ondřej Čech
Thesis topic: Overview of software suitable for demonstration of optical microscopy principles
Defence year: 2003, defended Supervisor: Michal Kozubek

Petr Veselý
Thesis topic: Discrete image transformations
Defence year: 2003, defended Supervisor: Petr Matula

Vladimír Dvořák
Thesis topic: Prezentation of FISH 3.0 system data via HTML
Defence year: 2003, defended Supervisor: Pavel Matula

Martin Vach
Thesis topic: Mathematical morphology toolbox in C++
Defence year: 2001, defended Supervisor: Petr Matula

Daniel Navrátil
Thesis topic: Transformation of graphical user interface from MS Windows to wxWindows
Defence year: 2000, defended Supervisor: Pavel Matula

Jaroslav Dočekal
Thesis topic: System for maintaining bibliography with WWW user interface
Defence year: 2000, defended Supervisor: Petr Matula

Martin Pitra
Thesis topic: System for maintaining bibliography with WWW user interface
Defence year: 2000, defended Supervisor: Petr Matula

Jan Schmidt
Thesis topic: Development of the web-page of Laboratory of high-resolution cytometry
Defence year: 1999, defended Supervisor: Michal Kozubek

David Černý
Thesis topic: Visualization of the convolution algorithm
Defence year: 1997, defended Supervisor: Michal Kozubek

Michal Politzer
Thesis topic: Visualization of the Fourier transform
Defence year: 1997, defended Supervisor: Michal Kozubek
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