Scientific Image Processing

S. Irsen (caesar Bonn, Molecular Sensory Systems)
H. Scharr (Forschungszentrum Jülich, Plant Sciences)
J. Jitsev (Forschungszentrum Jülich, Jülich Supercomputing Centre)
K. Krajsek (Forschungszentrum Jülich, Jülich Supercomputing Centre)
F. Rhiem (Forschungszentrum Jülich, PGI-JCNS Scientific IT Systems)
J. Heinen (Forschungszentrum Jülich, PGI-JCNS Scientific IT Systems)

Processing microscopy images is important to quantify data in both biophysics and soft matter. This course provides an introduction to image processing starting with how to obtain a digital image and how to apply simple filters. You will also get a chance to visit the electron microscopy and analytics facility at caesar. Follow-up lectures will then introduce you to optical flow/feature detection, machine learning, classification of images, and scientific visualisation. Using Python, ilastik, and ImageJ/Fiji, you will be able to get first hands-on experience on image processing.

Introduction to image processing (S. Irsen)
Wednesday, January 15, 9:00-12:00 (caesar Bonn, room 3.01/3.03)
(including a visit of the facility for electron microscopy and analytics at caesar)
Optical flow/feature detection (H. Scharr)
Wednesday, January 22, 1:00-2:30 (building 15.1, room 249)
Introduction to Machine Learning (J. Jitsev)
Wednesday, February 12, 1:00-2:30 (building 04.8, room 142/143)
Image Processing using ImageJ/Fiji and Python
Wednesday, February 12, 3:00-4:30 (building 04.8, room 142/143)
(Best bring along your own laptop, we will try to help you to install the programs if needed. We can also provide a limited number of course laptops. In case you cannot use your own laptop, please inform us as soon as possible.)
Classification of Images (K. Krajsek)
Announced for Wednesday, March 4, 1:00-2:30 BUT canceled!
A new date will be announced.
Image Processing using ImageJ/Fiji, ilastik, and Python
Announced for Wednesday, March 4, 3:00-4:30 BUT canceled!
A new date will be announced.
Scientific Visualisation (F. Rhiem, J. Heinen)
Wednesday, April 29, 1:00-2:30