Basics of Bioimage Analysis

Prerequisites

• You have experience in taking microscopy images of biological samples.
• You have a research project that may require automated quantification of microscopy images.

Content

This course is identical to the "Basics of Bioimage Analysis" course in January/February 2021.

This is an image analysis course for beginners and will cover the following topics:

• Image properties (data type, voxel size, display settings, …)
• Image segmentation (binarisation by thresholding)
• Image filtering and denoising
• Object detection (connected component analysis and label images)
• Object shape measurements
• Object intensity measurements

The practicals will be conducted using the graphical user interface of Fiji (https://fiji.sc/). However, we will focus on the concepts of image analysis rather than the specific implementation in Fiji. Thus, this course is also recommended if you are a beginner and want to perform image analysis in some other platform (e.g., using python scripting).

Location

The course will be held online.

Notes

This is a joint course between EMBL and The Max Planck Society (for each organisation will have space for 15 praticipants).

Teachers

• Christian Tischer, Centre for Bioimage Analysis, EMBL Heidelberg, Germany.
• Antonio Politi, Live-cell Imaging Facility, MPI Biophysical Chemistry, Goettingen, Germany.

Schedule

The course is distributed across four afternoons:

• Monday, 7. June 2021, 14:00 – 17:00 CET
• Tuesday, 8. June 2021, 14:00 – 17:00 CET
• Monday, 14. June 2021, 14:00 – 17:00 CET
• Tuesday, 15. June 2021, 14:00 – 17:00 CET

Bookings