Image Analysis course 2017
This course is an introduction to image processing and analysis, with a focus on biologically relevant examples. The attendees will 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.
Details
Next course: 6th of June and 19th - 23rd of June 2017
Max number of participants: 22
Audience: 10 seats open to all, 12 seats reserved for PhD students.
Application:
- for PhD students - open - apply via the PhD school*
- for non-PhD students - open: apply on CFIM website
*PhD students have to apply via the PhD school.
Requirements:
Attendees accepted for the course will before the course have to submit an image processing project, summarizing a scientific question and describing an image analysis challenge. The course program includes time to work on a personal project with advice, supervision and support from the teachers. Within one week after the course, attendees will have to submit a course report based on the outcome from their own project.
Teaching faculty:
- Simon Nørrelykke, IDA-ScopeM, ETH, Zurich, Switzerland
- Szymon Stoma, IDA-ScopeM, ETH, Zurich, Switzerland
- Chong Zhang, SIMBioSys, University Pompeu Fabra, Barcelona, Spain
Preliminary programme
| Morning |
Afternoon |
|
| 6th of June |
Image formation |
Preparation of project |
| Monday 19th |
Image analysis basics |
Image analysis in Fiji |
| Tuesday 20th |
Fiji plugins |
Image analysis in Fiji |
| Wednesday 21st |
Writing Macros in Fiji |
Work on projects |
| Thursday 22nd |
Image analysis in Ilastik | Work on projects |
| Friday 23rd |
Tableau / Plotly |
Project presentation |
Organizers
in collaboration with
