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Methods for phylogenetic supertree reconstruction
Kosíř, Kamil ; Maděránková, Denisa (referee) ; Škutková, Helena (advisor)
The Phylogenetic reconstruction has seen great development in the last 30 years. Computers have become more powerful and more generally accessible, and computer algorithms more sophisticated. It comes the effort of scientists to reconstruct the entire tree of life from a large amount of phylogenetic data. Just for this purpose are formed phylogenetic supertrees that allow the combination of all information gathered so far. The aim of this work is to find a method to construct supertree that will give correct results.
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Tool for Classification of Lifestyle Traits Based on Metagenomic Data from the Large Intestine
Kubica, Jan ; Hon, Jiří (referee) ; Smatana, Stanislav (advisor)
This thesis deals with analysis of human microbiome using metagenomic data from large intestine. The main focus is placed on bacteria composition in a sample on different taxonomic levels regarding the lifestyle traits of an individual. For this purpose, a tool for classification of several attributes was created. It considers attributes like diet type and eating habits (vegetarian, vegan, omnivore), gluten and lactose intolerance, body mass index, age or sex. From range of machine learning perspectives considering K Nearest Neighbours (kNN), Random Forest (RF) and Support Vector Machines (SVM) were used. Datasets for training and final evaluation of the classifier were taken from American Gut project. The thesis also focuses on particular problems with metagenomic datasets like its multidimensionality, sparsity, compositional character and class imbalance.
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Bootstrap methods in phylogenetics
Sedlář, Karel ; Vohánka,, Jaroslav (referee) ; Škutková, Helena (advisor)
In recent decades, phylogenetic reconstruction has noted great development. It was achieved by using newly acquired molecular characteristics and processing that it began to be taken as an objective science. Rapid development showed that it is necessary to evaluate the results because new techniques provided phylograms from unreliable data. For these purposes, statistical sampling methods have been applied to the phylogeny, of which bootstrapping began later to dominate. However, it also has limitations, which should be considered during interpreting the results it provided to us. This work demonstrates by combining the principles of bootstrapping and consensus trees we can obtain phylograms with better properties than those of conventional phylograms.
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Methods for phylogenetic supertree reconstruction
Jirásková, Kristýna ; Provazník, Ivo (referee) ; Škutková, Helena (advisor)
The phylogenetic reconstruction has noted great development in recent decades. The development of computers and device for sequencing biopolymers have been an enormous amount od phylogenetic data from different sources and different types. The scientists are trying to reconstruct a comlet tree of life from these data. The phylogenetic supertree are theoretically this option because a supertree alow a combination of all information gathered so far – in contras to the phylogenetic trees. This thesis present the method of reconstruction supertrees using average konsensus method.
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Tool for Classification of Lifestyle Traits Based on Metagenomic Data from the Large Intestine
Kubica, Jan ; Hon, Jiří (referee) ; Smatana, Stanislav (advisor)
This thesis deals with analysis of human microbiome using metagenomic data from large intestine. The main focus is placed on bacteria composition in a sample on different taxonomic levels regarding the lifestyle traits of an individual. For this purpose, a tool for classification of several attributes was created. It considers attributes like diet type and eating habits (vegetarian, vegan, omnivore), gluten and lactose intolerance, body mass index, age or sex. From range of machine learning perspectives considering K Nearest Neighbours (kNN), Random Forest (RF) and Support Vector Machines (SVM) were used. Datasets for training and final evaluation of the classifier were taken from American Gut project. The thesis also focuses on particular problems with metagenomic datasets like its multidimensionality, sparsity, compositional character and class imbalance.
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The analysis of bobsledder's two-year training preparation cycle
Dvořák, Dominik ; Hojka, Vladimír (advisor) ; Červinka, Pavel (referee)
Title: The analysis of bobsledder's two-year training preparation cycle. Objectives: The aim of this bachelor thesis is the analysis and evaluation of the performance development during the two-year training cycle in bobsleigh sport. The thesis evaluates general and specific training indicators based on completed training of a bobsledder. It depicts the influence of specific training indicators on performance in both 2-men and 4-men bobsleigh starts. Methods: The thesis analyses the training diary which covers two years of preparation, including several general and specific training indicators which are selected and further evaluated. The general training indicators include the amount of training days and individual training units, the total workout time and the time spent on regeneration. Specific training indicators include factors primarily affecting bobsleigh starts. Individual specific training indicators are evaluated on the basis of their level of intensity and their overall classification into the corresponding period of the annual training cycle. Results: The reason of the performance enhancement of the bobsledder was mainly the higher amount of training completed among specific training indicators. The main training goal was the increase of the strength. This increase before the 2017/18...
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Sprinter's training analysis
Vostatková, Pavlína ; Kaplan, Aleš (advisor) ; Feher, Jan (referee)
Thema works: Sprinter's training analysis Student: Pavlína Vostatková Supervisor: Dr. Alex Kaplan, Ph.D. Aims: The analysis of the sprinter's training process based on the annual training cycle (RTC) in terms of methodological procedure, how to use the resources of special training indicators (STU), their volume and intensification of applications in various stages of sports training. Comparison of uniform training system and recommendations for sprinters of comparable level of performance with the reality of comprehensive evaluation of the training program of selected sprinter. Methodology: The content analysis of training diary was used as a method of the thesis.We obtained and reviewed selected general training indicators (OTU) and STU for sprinters in athletics from the training diary. In OTU section we focused on volume of training days and training units while total loadtime and number of days of training restrictions due to medical disability. InSTU, we focused especially on the development of acceleration and maximum speed (totalvolume in km), the development of speed endurance (km) development of dynamic forces through running with load (km), further bouncing I and II (evaluated in number of repetitions) and strengthening with the load above 20% of the body weight(estimated in t onnes)....
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Bootstrap methods in phylogenetics
Sedlář, Karel ; Vohánka,, Jaroslav (referee) ; Škutková, Helena (advisor)
In recent decades, phylogenetic reconstruction has noted great development. It was achieved by using newly acquired molecular characteristics and processing that it began to be taken as an objective science. Rapid development showed that it is necessary to evaluate the results because new techniques provided phylograms from unreliable data. For these purposes, statistical sampling methods have been applied to the phylogeny, of which bootstrapping began later to dominate. However, it also has limitations, which should be considered during interpreting the results it provided to us. This work demonstrates by combining the principles of bootstrapping and consensus trees we can obtain phylograms with better properties than those of conventional phylograms.
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Methods for phylogenetic supertree reconstruction
Kosíř, Kamil ; Maděránková, Denisa (referee) ; Škutková, Helena (advisor)
The Phylogenetic reconstruction has seen great development in the last 30 years. Computers have become more powerful and more generally accessible, and computer algorithms more sophisticated. It comes the effort of scientists to reconstruct the entire tree of life from a large amount of phylogenetic data. Just for this purpose are formed phylogenetic supertrees that allow the combination of all information gathered so far. The aim of this work is to find a method to construct supertree that will give correct results.
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Methods for phylogenetic supertree reconstruction
Jirásková, Kristýna ; Provazník, Ivo (referee) ; Škutková, Helena (advisor)
The phylogenetic reconstruction has noted great development in recent decades. The development of computers and device for sequencing biopolymers have been an enormous amount od phylogenetic data from different sources and different types. The scientists are trying to reconstruct a comlet tree of life from these data. The phylogenetic supertree are theoretically this option because a supertree alow a combination of all information gathered so far – in contras to the phylogenetic trees. This thesis present the method of reconstruction supertrees using average konsensus method.
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