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News
(10-04-2012 ) Software practical 5, 24-05-2012; Hands on SCIL/Huygens room 302.
(15-05-2012 ) Results written exam available next to room 105.
(10-05-2012 ) Documents Huygens Software available in Documents Sections of this URL.
(09-05-2012 ) Practical deconvolution 10-05-2012 starts at 11.15 in 405
(07-05-2012 ) All CLSM images are on scratch disk.
(11-04-2012 ) Assignments 1-4 available.
(10-04-2012 ) Software practical 2 12-04, 11.15; start in room 405.
(02-04-2012 ) Schedule for CLSM practical 04-04 published.
(02-04-2012 ) Lecture Notes 28-03-12, lecture 14 published.
(28-03-2012 ) Lecture Notes 28-03-12, lecture 13 published.
(21-03-2012 ) Lecture Notes 21-03-12, lecture 2A published (Practical).
(19-03-2012 ) Lecture Notes 19-03-12, lecture 12 published.
(16-03-2012 ) Lecture Note Schedule updated.
(13-03-2012 ) Lecture Notes 08-03-12, lecture 10 published.
(13-03-2012 ) Lecture Notes 05-03-12, lecture 09 published.
(13-03-2012 ) Lecture Notes 01-03-12, lecture 08 published.
(13-03-2012 ) Lecture Notes 20-02-12, lecture 05 published.
(13-03-2012 ) Lecture Notes 12-03-12, lecture 11 published.
(13-03-2012 ) Lecture Notes 28-02-12, lecture 07 published.
(13-03-2012 ) Schedule for Excursion EM in LUMC: 15-03-2012; can be found here: [PDF]
(12-03-2012 ) Test 1, 26-03-2012, 11.15-13.00.
(12-03-2012 ) Excursion/Practical CLSM Microscopy: 04-04-2012; instructions will follow.
(12-03-2012 ) Excursion EM in LUMC: 15-03-2012. Group 1 will start at 11.00 and group 2 will start at 12.00. Email will follow asap and takes your schedule into account.
(23-02-2012 ) Lecture Notes 23-02-12, lecture 06 published.
(16-02-2012 ) Lecture Notes 16-02-12, lecture 04 published.
(14-02-2012 ) Lecture Notes 09-02-12, lecture 02 published.
(13-02-2012 ) Lecture Notes 13-02-12, lecture 03 published.
(06-02-2012 ) Lecture Notes 06-02-12, lecture 01 published.
(01-02-2012 ) The Lectures MMV-Image Analysis in Microscopy will be given in room 405;
Monday's and Thursday's from 11.15 till 13.00.
First, introductory, Lecture will be given Monday February 6th 2012.
(31-01-2012) The Lectures MMV-Image Analysis in Microscopy will be given on Monday's and Thursday's from 11.15 - 13.00.
These lectures are planned till beginning of April 2011; In April the focus will be on the the practical part of the course.
In the section on Lecture notes a subject list will be presented this will also include the schedule of the lectures.
Course Contents
In this course the origin and analysis of images acquired through microscopy is the leading theme. Images play a major role in 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. The course consists of a series of lectures, practical assignments using programmable image analysis software environments and "hands-on" experience with microscopes (i.e. image acquisition). The course is concluded with a report on the practical work and a written exam.
This course will be given by two lecturers. These are, Dr. Ir. F.J. Verbeek (coordinator)and Dr. D.P. Huijsmans.
Assistance in the practical part will be given by Drs. J. Slob, Drs. K.Yan and Drs. A.Nezhinsky.
The microscopy will be assisted by G. Lamers (head microscopy at the Clusius Laboratory, IBL).
- Course Contents: CS, track BioInformatics
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See course content.
This course is part of the core program for the mastertrack BioInformatics and also known as Microscopy, Modelling and Visualisation. This course is suitable for master students in Computer Science, Media Technology, Biology, Physics, LST and BPS. The course is also suitable for those PhD students for whom knowledge of imaging and image processing is beneficial to their research projects.