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Microscopy, Modeling and Visualisation



The course introduces the subject of image analysis in microscopy through a series of lectures, practical assignments using programmable image analysis software environments and “hands-on” experience with microscopes (i.e. image acquisition).


In this course the origin (formation) and analysis of images acquired through microscopy is the leading theme. Images play a major role in the understanding of biological processes. Bio-molecular processes are visualized by a range of microscopical techniques and modalities. From images coherent visualizations and models are derived. The characteristic sequence of image analysis starts with the acquisition, proceeds to restoration and segmentation to conclude with analysis. This sequence will be the skeleton of this course. Image acquisition in microscopy will be dealt with on a theoretical as well as practical level. In a series of lectures all important aspects of imaging along the line of the characteristic sequence of image analysis are dealt with. Concepts of image processing will be introduced and it will be discussed how set of image features is compiled in measurements. Subjects will use the 2D imaging as a means of explaining the principles and the switch to multi-dimensional imaging to illustrate the implications of imaging in research and connect to current topics in bio-medical research. Presenting results through visualization and modeling is an ingredient found in applications that are discussed.


written exam and report of practical assignments


see course website for course materials. Digital Image Processing, 2nd edition Rafael C. Gonzalez & Richard E. Woods Publisher Prentice Hall ISBN 0201180758


Microscopy, Modeling and Visualisation


book and handouts that are provided.