Suchergebnis: Katalogdaten im Herbstsemester 2018
|Vertiefung in Computational Science|
|Wahlfächer der Vertiefung in Computational Science|
|252-0543-01L||Computer Graphics||W||6 KP||3V + 2U||M. Gross, J. Novak|
|Kurzbeschreibung||This course covers some of the fundamental concepts of computer graphics, namely 3D object representations and generation of photorealistic images from digital representations of 3D scenes.|
|Lernziel||At the end of the course the students will be able to build a rendering system. The students will study the basic principles of rendering and image synthesis. In addition, the course is intended to stimulate the students' curiosity to explore the field of computer graphics in subsequent courses or on their own.|
|Inhalt||This course covers fundamental concepts of modern computer graphics. Students will learn about 3D object representations and the details of how to generate photorealistic images from digital representations of 3D scenes. Starting with an introduction to 3D shape modeling and representation, texture mapping and ray-tracing, we will move on to acceleration structures, the physics of light transport, appearance modeling and global illumination principles and algorithms. We will end with an overview of modern image-based image synthesis techniques, covering topics such as lightfields and depth-image based rendering.|
|Voraussetzungen / Besonderes||Prerequisites:|
Fundamentals of calculus and linear algebra, basic concepts of algorithms and data structures, programming skills in C++, Visual Computing course recommended.
The programming assignments will be in C++. This will not be taught in the class.
|261-5100-00L||Computational Biomedicine |
Number of participants limited to 60.
|W||4 KP||2V + 1U||G. Rätsch|
|Kurzbeschreibung||The course critically reviews central problems in Biomedicine and discusses the technical foundations and solutions for these problems.|
|Lernziel||Over the past years, rapid technological advancements have transformed classical disciplines such as biology and medicine into fields of apllied data science. While the sheer amount of the collected data often makes computational approaches inevitable for analysis, it is the domain specific structure and close relation to research and clinic, that call for accurate, robust and efficient algorithms. In this course we will critically review central problems in Biomedicine and will discuss the technical foundations and solutions for these problems.|
|Inhalt||The course will consist of three topic clusters that will cover different aspects of data science problems in Biomedicine: |
1) String algorithms for the efficient representation, search, comparison, composition and compression of large sets of strings, mostly originating from DNA or RNA Sequencing. This includes genome assembly, efficient index data structures for strings and graphs, alignment techniques as well as quantitative approaches.
2) Statistical models and algorithms for the assessment and functional analysis of individual genomic variations. this includes the identification of variants, prediction of functional effects, imputation and integration problems as well as the association with clinical phenotypes.
3) Models for organization and representation of large scale biomedical data. This includes ontolgy concepts, biomedical databases, sequence annotation and data compression.
|Voraussetzungen / Besonderes||Data Structures & Algorithms, Introduction to Machine Learning, Statistics/Probability, Programming in Python, Unix Command Line|
|636-0017-00L||Computational Biology||W||6 KP||3G + 2A||T. Stadler, C. Magnus, T. Vaughan|
|Kurzbeschreibung||The aim of the course is to provide up-to-date knowledge on how we can study biological processes using genetic sequencing data. Computational algorithms extracting biological information from genetic sequence data are discussed, and statistical tools to understand this information in detail are introduced.|
|Lernziel||Attendees will learn which information is contained in genetic sequencing data and how to extract information from this data using computational tools. The main concepts introduced are:|
* stochastic models in molecular evolution
* phylogenetic & phylodynamic inference
* maximum likelihood and Bayesian statistics
Attendees will apply these concepts to a number of applications yielding biological insight into:
* pathogen evolution
* macroevolution of species
|Inhalt||The course consists of four parts. We first introduce modern genetic sequencing technology, and algorithms to obtain sequence alignments from the output of the sequencers. We then present methods for direct alignment analysis using approaches such as BLAST and GWAS. Second, we introduce mechanisms and concepts of molecular evolution, i.e. we discuss how genetic sequences change over time. Third, we employ evolutionary concepts to infer ancestral relationships between organisms based on their genetic sequences, i.e. we discuss methods to infer genealogies and phylogenies. Lastly, we introduce the field of phylodynamics, the aim of which is to understand and quantify population dynamic processes (such as transmission in epidemiology or speciation & extinction in macroevolution) based on a phylogeny. Throughout the class, the models and methods are illustrated on different datasets giving insight into the epidemiology and evolution of a range of infectious diseases (e.g. HIV, HCV, influenza, Ebola). Applications of the methods to the field of macroevolution provide insight into the evolution and ecology of different species clades. Students will be trained in the algorithms and their application both on paper and in silico as part of the exercises.|
|Skript||Lecture slides will be available on moodle.|
|Literatur||The course is not based on any of the textbooks below, but they are excellent choices as accompanying material:|
* Yang, Z. 2006. Computational Molecular Evolution.
* Felsenstein, J. 2004. Inferring Phylogenies.
* Semple, C. & Steel, M. 2003. Phylogenetics.
* Drummond, A. & Bouckaert, R. 2015. Bayesian evolutionary analysis with BEAST.
|Voraussetzungen / Besonderes||Basic knowledge in linear algebra, analysis, and statistics will be helpful. Programming in R will be required for the project work (compulsory continuous performance assessments). We provide an R tutorial and help sessions during the first two weeks of class to learn the required skills. However, in case you do not have any previous experience with R, we strongly recommend to get familiar with R prior to the semester start. For the D-BSSE students, we highly recommend the voluntary course „Introduction to Programming“, which takes place at D-BSSE from Wednesday, September 12 to Friday, September 14, i.e. BEFORE the official semester starting date http://www.cbb.ethz.ch/news-events.html |
For the Zurich-based students without R experience, we recommend the R course Link, or working through the script provided as part of this R course.
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