Methods for Cell Analysis

The course Methods for Cell Analysis has been organised by BioVis since 2007. It is aimed at postgraduate students, post-docs and research engineers who wants to learn more about Light Microscopy, Flow Cytometry and Electron Microscopy. The course is based on a lecture series and practical hands on sessions. Lectures will cover e.g. theory of fluorescence, its application in various light microscopy techniques as well as flow cytometry and image analysis. Electron microscopy and latest technical achievements like super resolution - and lightsheet microscopy are covered as well. The practical hands-on sessions include resources found at BioVis like laser scanning and two photon microscopy, lightsheet microscopy, flow cytometry and cell sorting, image based flow cytometry and image analysis with Cell Profiler and IMARIS. For more information please contact and see a schedule example from the previous year MCA. 

MCA 2019 Spring: May 08-17. For application, click here.

MCA 2019 Autumn: October 16-25. For application, click here.

Introduction to Image Analysis Softwares

The Introduction to Image Analysis Software course provides an introduction to image analysis in general and to common image analysis software. Students will learn to use and compare the merits of ImageJ, Imaris, Cell Profiler and Huygens. The course is very hands on and the participants will initially use ImageJ and, in groups, and progress to more complex sequences of operations by creating ImageJ macros. The students will emerge with enough skills and confidence to apply image analysis to their own images. For more information, and to apply, please contact and see a schedule example from the previous year.

IAS 2019 Spring: April 08-12. For application, click here.

IAS 2019 Autumn, September 09-13. For application, click here.

First steps in image analysis

A one day introduction to image analysis focusing on using the FIJI version of ImageJ, a very popular and powerful open source piece package. The course has two aims, to understand the potential and the problems in image analysis and how to use ImageJ. We examine how to change the appearance of images, identifying areas of interest, types of image and finally making measurements.

Course dates for spring 2019: February 6th, April 16th , June 12th

9.30-4.30 at Rudbecklab Lab Science Park Uppsala, Rosalind Franklin room

For application to this course, use this link and fill the form:

For more information, please contact

Writing Image J Macros

Create new protocols and automating existing methods. Macros are text files holding a sequences of actions that allow the repeated and rapid use of a standard analysis. We can also create new protocols that are not available in commercial software. Macros can be reused, shared and included in the methods section of publications.
This one day course is intended for those familiar with ImageJ (First Steps course) and focuses on automating image analysis.

Course dates for spring 2019: March 6th, May 23rd

For application to this course, use this link and fill the form:

 For more information, please contact