Title: Gradient boosted segmentation of retinal fundus images Author: Matúš Goliaš Department: Department of Software and Computer Science Education Supervisor: Doc. RNDr. Elena Šikudová PhD., Department of Software and Computer Science Education Abstract: Over the recent years, there has been an increase in the use of automatic methods in medical diagnosis. A significant number of publications have analysed eye disorders and diseases. One of the most severe eye conditions is glaucoma. It damages optic nerves and causes gradual loss of vision. An essential step towards a faster diagnosis of this disease is accurate segmentation of the optic disc and cup. This task is difficult due to many retinal defects, different image acquisition techniques, and artefacts caused by imaging devices. This thesis describes an iterative threshold-based algorithm for extraction of the optic disc. An objective function quantifying object similarity to the optic disc is defined to direct the iteration. Following that, we introduce a superpixel-based classification algorithm for extraction of the optic cup. We propose the use of gradient boosted decision trees which outperform random forest and support vector machine. In addition, we evaluate the proposed algorithms and their alternatives on a publicly available retinal fundus...

The first topic of this thesis is a novel voltage tripler using 4 clocks with different phases. Both the positive and negative polarities of the voltage are generated to serve as the boosted voltage and the back bias voltage. The proposed design is carried out by pass transistors and switched capacitors. The second topic is a low-power discrete cosine transform (DCT) processor. It is suitable for portable applications. The number of clock cycles needed for processing an 8¡Ñ8 block of pixels is increased, but the chip area is reduced. The reduction of the chip area leads to the reduction of the power dissipation.

This thesis presents details of the search for the Standard Model Higgs boson, in the low mass region (100 ≤ MH < 150 GeV), with the ATLAS detector at CERN. In this range, a Higgs boson may be produced in association with a W or Z-boson and decay predominantly to two b-quarks (H → b¯b). Specifically events having large Higgs boson transverse momentum (pT > 200 GeV) and large recoiling W- boson transverse momentum (pT > 200 GeV) are considered as a means to reduce the contribution from background processes. In this high pT (boosted) regime, novel jet-substructure techniques are applied to the reconstructed jets resulting from the Higgs boson decay. In order to use these jet-substructure techniques, b-tagging efficiency scale factors in the jet-substructure regime have also been derived for the first time. Details of their derivation are presented for many b- tagging algorithms, with 14.3 fb¯¹ of ATLAS proton-proton collision data in 2012 at √s = 8 TeV. These, and their associated systematic uncertainties, are then applied to the Higgs boson search. No significant measurement of Higgs boson production was made, based on 20.4 fb¯¹ of ATLAS proton-proton collision data in 2012 at √s = 8 TeV. For a Higgs boson mass of 125 GeV, an exclusion limit of 6.12 x σSM was found at the 95% confidence level, and a signal strength of 0:93 ± 2:63 was measured, consistent with both background-only and signal (Standard Model Higgs boson) plus background hypotheses.

京都大学 / 新制・課程博士 / 博士(理学) / 甲第23597号 / 理博第4759号 / 新制||理||1682(附属図書館) / 京都大学大学院理学研究科物理学・宇宙物理学専攻 / (主査)長野 邦浩, 教授 中家 剛, 准教授 吉岡 興一 / 学位規則第4条第1項該当 / Doctor of Science / Kyoto University / DFAM

Traffic classification is important for Internet providers and other organizations to solve some critical network management problems.The most common methods for traffic classification is Deep Packet Inspection (DPI) and port based classification. These methods are starting to become obsolete as more and more traffic are being encrypted and applications are starting to use dynamic ports and ports of other popular applications. An alternative method for traffic classification uses Machine Learning (ML).This ML method uses statistical features of network traffic flows, which solves the fundamental problems of DPI and port based classification for encrypted flows.The data used in this study is divided into video and non-video traffic flows and the goal of the study is to create a model which can classify video flows accurately in real-time.Previous studies found tree-based algorithms to work well in classifying network traffic. In this study random forest and gradient boosted trees are examined and compared as they are two of the best performing tree-based classification models.Random forest was found to work the best as the classification speed was significantly faster than gradient boosted trees. Over 93% correctly classified flows were achieved while keeping the random forest model small enough to keep fast classification speeds. / HITS, 4707

O recrutamento é extremamente importante no ambiente recifal, sendo o principal responsável pelo reabastecimento de populações adultas de peixes. Esse fenômeno é altamente complexo, não sendo claro se é influenciado apenas por processos estocásticos ou também por processos determinísticos. No presente estudo avaliamos a dinâmica temporal do recrutamento de diversas espécies de peixes recifais, identificando sítios de berçário (i.e. recrutamento estável e alto) e a influência de variáveis ambientais. Para tal, utilizamos dados de um monitoramento de médio prazo (i.e. 2001 a 2014) realizado no Banco dos Abrolhos (BA-Brasil). Foram amostrados mais de 45 sítios, sendo levantados dados sobre a comunidade de peixes, comunidade bentônica e outras variáveis ambientais. A partir desses dados, avaliamos a variação do recrutamento por sítio em dois períodos distintos (i.e. 2001-2008/2006-2014) e a influência de variáveis ambientais no recrutamento, através da técnica Boosted Regression Trees. Constatamos que diversas espécies de peixe apresentam-se com recrutamento estável em distintos sítios de amostragem. Também observamos um efeito positivo da densidade de peixes recifais coespecíficos adultos e da cobertura relativa de algas frondosas no recrutamento de diversas espécies analisadas. No geral, observamos que há certa espécie especificidade no processo de recrutamento, porém, em escalas espaciais maiores, os padrões podem estar ligados a características mais gerais, relacionadas a um grupo taxonômico mais elevado. Em relação aos sítios de berçário, um se destacou, sendo berçário de 5 diferentes espécies, incluindo Scarus trispinosus, uma das espécies prioritárias para conservação na região de Abrolhos. Assim, recomendamos a criação de uma área marinha de proteção integral que englobe o sítio em questão. Além disso, as descobertas deste trabalho nos permitem reforçar a teoria de que o recrutamento de peixes recifais pode ser influenciado por fenômenos determinísticos e não varia simplesmente de maneira estocástica. / Recruitment is extremely important in the reef environment, because it is the main source of population replenishment. Reef fish recruitment is a highly complex process and it is not clear whether it is influenced only by stochastic processes or also by deterministic processes. Herein, we aimed to investigate temporal dynamics of reef fish recruitment, identify nursery sites (i.e. predictably high recruitment sites) and evaluate the influence of environmental variables on recruitment. We used data from a medium-term time series (i.e. 2001-2014) of scientific surveys in Abrolhos Bank (BA-Brazil). We sampled more than 45 sites, for several consecutive years and recorded data about fish community, benthic community and other environmental variables. We assessed the variation of recruitment on each site, during two distinct periods (i.e. 2001-2008 / 2006-2014), and used the Boosted Regression Trees technique to evaluate the influence of environmental variables in recruitment. We found that several reef fish species present a low variable recruitment at different sampling sites. BRT showed a positive effect of the coverage of flesh algae and abundance of conspecific in the abundance of recruits (i.e. young-of-year) of many species. Overall, we notice that the recruitment traits seems to be species specific, but we also found indications that in larger spatial scales, recruitment spatial and temporal patterns may be related to general characteristics among species of the higher taxa. Nursery sites varied among species and one site was a nursery to 5 different reef fish species, including Scarus trispinosus, a species that require priority conservation in the Abrolhos Bank. Therefore, we recommend the creation of a new no-take marine protected area that encompasses this site. Our results also indicated that reef fish recruitment may be influenced by deterministic processes and do not vary only stochastically.

O recrutamento é extremamente importante no ambiente recifal, sendo o principal responsável pelo reabastecimento de populações adultas de peixes. Esse fenômeno é altamente complexo, não sendo claro se é influenciado apenas por processos estocásticos ou também por processos determinísticos. No presente estudo avaliamos a dinâmica temporal do recrutamento de diversas espécies de peixes recifais, identificando sítios de berçário (i.e. recrutamento estável e alto) e a influência de variáveis ambientais. Para tal, utilizamos dados de um monitoramento de médio prazo (i.e. 2001 a 2014) realizado no Banco dos Abrolhos (BA-Brasil). Foram amostrados mais de 45 sítios, sendo levantados dados sobre a comunidade de peixes, comunidade bentônica e outras variáveis ambientais. A partir desses dados, avaliamos a variação do recrutamento por sítio em dois períodos distintos (i.e. 2001-2008/2006-2014) e a influência de variáveis ambientais no recrutamento, através da técnica Boosted Regression Trees. Constatamos que diversas espécies de peixe apresentam-se com recrutamento estável em distintos sítios de amostragem. Também observamos um efeito positivo da densidade de peixes recifais coespecíficos adultos e da cobertura relativa de algas frondosas no recrutamento de diversas espécies analisadas. No geral, observamos que há certa espécie especificidade no processo de recrutamento, porém, em escalas espaciais maiores, os padrões podem estar ligados a características mais gerais, relacionadas a um grupo taxonômico mais elevado. Em relação aos sítios de berçário, um se destacou, sendo berçário de 5 diferentes espécies, incluindo Scarus trispinosus, uma das espécies prioritárias para conservação na região de Abrolhos. Assim, recomendamos a criação de uma área marinha de proteção integral que englobe o sítio em questão. Além disso, as descobertas deste trabalho nos permitem reforçar a teoria de que o recrutamento de peixes recifais pode ser influenciado por fenômenos determinísticos e não varia simplesmente de maneira estocástica. / Recruitment is extremely important in the reef environment, because it is the main source of population replenishment. Reef fish recruitment is a highly complex process and it is not clear whether it is influenced only by stochastic processes or also by deterministic processes. Herein, we aimed to investigate temporal dynamics of reef fish recruitment, identify nursery sites (i.e. predictably high recruitment sites) and evaluate the influence of environmental variables on recruitment. We used data from a medium-term time series (i.e. 2001-2014) of scientific surveys in Abrolhos Bank (BA-Brazil). We sampled more than 45 sites, for several consecutive years and recorded data about fish community, benthic community and other environmental variables. We assessed the variation of recruitment on each site, during two distinct periods (i.e. 2001-2008 / 2006-2014), and used the Boosted Regression Trees technique to evaluate the influence of environmental variables in recruitment. We found that several reef fish species present a low variable recruitment at different sampling sites. BRT showed a positive effect of the coverage of flesh algae and abundance of conspecific in the abundance of recruits (i.e. young-of-year) of many species. Overall, we notice that the recruitment traits seems to be species specific, but we also found indications that in larger spatial scales, recruitment spatial and temporal patterns may be related to general characteristics among species of the higher taxa. Nursery sites varied among species and one site was a nursery to 5 different reef fish species, including Scarus trispinosus, a species that require priority conservation in the Abrolhos Bank. Therefore, we recommend the creation of a new no-take marine protected area that encompasses this site. Our results also indicated that reef fish recruitment may be influenced by deterministic processes and do not vary only stochastically.

En juillet 2012, le CERN a annoncé la découverte du boson de Higgs qui est la dernière particule manquante du Modèle Standard (MS). Le boson de Higgs a été observé dans différents canaux. La mesure précise de ses propriétés est maintenant très importante pour rechercher des déviations par rapport au SM. Cette thèse présente une recherche du boson de Higgs produit en association avec une paire de quarks top et se désintégrant en une paire de b quark, le canal ttH(H → bb) , en utilisant les données de collisions proton-proton à √s = 13 TeV, collectées avec le détecteur ATLAS en 2015 et 2016. Ce document détaille en particulier la reconstruction du systéme ttH et la séparation du signal du bruit de fond principal tt + jets. Des études récentes montrent qu'il existe une fraction importante du bruit de fond ttbb avec des jets contenant deux hadrons b. Un nouvel algorithme a été développé pour séparer ces jets des jets contenant un seul b-hadron. La description de cet outil est présenté dans cette thèse. / In July 2012, CERN announced the discovery of the Higgs boson, the last missing piece of the Standard Model (SM). The Higgs boson was observed in different channels. Precise measurement of its properties is now very important to investigate for possible deviations from the SM. This thesis presents a search for the Higgs boson produced in association with top quarks and decaying to a b quark pair, the ttH(H→bb) channel, using proton-proton collisions at √s = 13 TeV, collected with the ATLAS detector in 2015 and 2016. This document details in particular the full reconstruction of the ttH(H→bb) system and the discrimination between signal and the main background, tt+jets. The ttbb is a subset of the tt+jets backgrounds recent studies show that there is a large fraction of ttbb events with jets containing two b-hadrons. A new algorithm has been developed to discriminate such jets from single b-hadrons jets. The description of this tool is presented in this thesis.

A search for vector-like quarks (VLQs) decaying to a Z boson using multi-stage machine learning was compared to a search using a standard square cuts search strategy. VLQs are predicted by several new theories beyond the Standard Model. The searches used 20.3 inverse femtobarns of proton-proton collisions at a center-of-mass energy of 8 TeV collected with the ATLAS detector in 2012 at the CERN Large Hadron Collider. CLs upper limits on production cross sections of vector-like top and bottom quarks were computed for VLQs produced singly or in pairs, Tsingle, Bsingle, Tpair, and Bpair. The two stage machine learning classification search strategy did not provide any improvement over the standard square cuts strategy, but for Tpair, Bpair, and Tsingle, a third stage of machine learning regression was able to lower the upper limits of high signal masses by as much as 50%. Additionally, new test statistics were developed for use in the Neyman construction of confidence regions in order to address deficiencies in current frequentist methods, such as the generation of empty set confidence intervals. A new method for treating nuisance parameters was also developed that may provide better coverage properties than current methods used in particle searches. Finally, significance ratio functions were derived that allow a more nuanced interpretation of the evidence provided by measurements than is given by confidence intervals alone.

The forest products industry is a significant contributor to the U.S. economy contributing six percent of the total U.S. manufacturing gross domestic product (GDP), placing it on par with the U.S. automotive and plastics industries. Sustaining business competitiveness by reducing costs and maintaining product quality will be essential in the long term for this industry. Improved production efficiency and business competitiveness is the primary rationale for this work. A challenge facing this industry is to develop better knowledge of the complex nature of process variables and their relationship with final product quality attributes. Quantifying better the relationships between process variables (e.g., press temperature) and final product quality attributes plus predicting the strength properties of final products are the goals of this study. Destructive lab tests are taken at one to two hour intervals to estimate internal bond (IB) tensile strength and modulus of rupture (MOR) strength properties. Significant amounts of production occur between destructive test samples. In the absence of a real-time model that predicts strength properties, operators may run higher than necessary feedstock input targets (e.g., weight, resin, etc.). Improved prediction of strength properties using boosted regression tree (BRT) models may reduce the costs associated with rework (i.e., remanufactured panels due to poor strength properties), reduce feedstocks costs (e.g., resin and wood), reduce energy usage, and improve wood utilization from the valuable forest resource. Real-time, temporal process data sets were obtained from a U.S. particleboard manufacturer. In this thesis, BRT models were developed to predict the continuous response variables MOR and IB from a pool of possible continuous predictor variables. BRT model comparisons were done using the root mean squared error for prediction (RMSEP) and the RMSEP relative to the mean of the response variable as a percent (RMSEP%) for the validation data set(s). Overall, for MOR, RMSEP values ranged from 0.99 to 1.443 MPa, and RMSEP% values ranged from 7.9% to 11.6%. Overall, for IB, RMSEP values ranged from 0.074 to 0.108 MPa, and RMSEP% values ranged from 12.7% to 18.6%.