Digital images (Linear shift-invariant systems)

An introduction to signals and systems, sampling theory, filtering in spatial and frequency domain.

First presented at the Image Processing basics course organized by the Microscopy Network Basel in November 2014 (last update: November 2016).

Deconvolution primer

This is a short introduction to optics, image formation, and deconvolution that I give before an hands-on course on the Huygens Remote Manager (last update: November 2016).

Course material

Introduction to ImarisXT and IceImarisConnector

Course text

• XTensions
• dataset [8.7MB]

Writing XTensions with Vanilla ImarisXT vs. IceImarisConnector

Biological Image Processing Summer School 2010

Focused on ImageJ, MATLAB and Cell Profiler

In collaboration with the Light Microscopy Centre, ETH Zurich
August 29th – September 3rd, 2010
Role: co-organizer of the scientific program and teacher

Detailed course program

Course material

Introduction to MATLAB programming

• Session 1: First steps in MATLAB (exercise solutions)
• Session 2: Data types and structures (exercise solutions; MATLAB code)
• Session 3: Object-oriented programming and external interfaces (add-on; MATLAB code)
• Session 4: Visualization and GUI programming (MATLAB code)

Introduction to statistics with MATLAB

This course had its own introduction to MATLAB, but I recommend using sessions 1 and 2 (and maybe even 3) from the "Introduction to MATLAB programming" course above.

• Session 3 (exercise solutions)
• Session 4 (exercise solutions)

Source control with Subversion

Quick introduction to source control using subversion.

Course material