Graduate School of health and Medical Sciences

Image processing
Provider: Faculty of Health and Medical Sciences

Activity no.: 3645-17-00-00
	Enrollment deadline: 06/05/2017

Date and time	06.06.2017, at: 09:00 - 23.06.2017, at: 17:00
Regular seats	12
Course fee	9,480.00 kr.
Lecturers	Clara Prats
ECTS credits	5.30

Contact person	Ragnhild Mostert E-mail address: rmostert@sund.ku.dk

Enrolment Handling/Course Organiser	PhD administration E-mail address: phdkursus@sund.ku.dk

Aim and content This course is free of charge for PhD students at Danish universities (except Copenhagen Business School). Special rules apply for research year students enrolled at Faculty of Health and Medical Sciences at UCPH. All other participants must pay the course fee. Anyone can apply for the course, but if you are not a PhD student, you will be placed on the waiting list for the course until enrollment deadline. After the deadline of enrollment, available seats will be allocated to students on the waiting list. Aim: This course is an introduction to image processing and analysis, with a focus on biologically relevant examples. The students will also learn the fundamentals of image analysis including how to do basic Macro programming in Fiji (ImageJ) for automated batch analysis of images, use different software solutions for image analysis, and will be introduced to visualisation and explorative data analysis after extraction of numerical data from images. Content: We will initially use FijJi to illustrate fundamental image analysis concepts, then expand to introduce other software packages such as Iilastik. The students will learn what a digital image is, how and when to perform basic image processing tasks and how to combine such tasks to perform advanced image processing and segmentation, automated pixel classification and, 2D and 3D measurements. Furthermore, the student will learn basic Macro programming and how to automate analysis of many images. There will also be a session on how to use a graphically based software for visualising numerical data and performing various statistical analysis steps. Students will have to submit an image processing project before the course; summarizing a bioimaging experiment and describing the research question. The course will consist of a course preparation day (June 6th - introduction to image formation, basics on Fiji and preparation of own projects) followed by 5 days teaching (June 19-23rd). The course program includes work on own project sessions with advice, supervision and support from the teachers. Within 1 week after the course, students will need to submit a course report based on the outcome from their own project. Participants - 12 PhD students who use digital imaging. Language - English Form - Lectures are combined with hands on exercises Course director – Clara Prats; cprats@sund.ku.dk Teachers - Chong Zhang, Simon F. Nørrelykke and Szymon Stoma Assistance from: Laure Plantard, Thomas Braunstein and Clara Prats Course secretary - Ragnhild Mostert; rmostert@sund.ku.dk Dates – 6.06.17 and 19.06.17 - 23.06.17 Course location – Panum – PC room 21.2.22a

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