Centres Científics i Tecnològics UB

Course of Processing and Analysis of Advanced Optical Microscopy Images with ImageJ- 10th & 11th Edition

Objectives Date Location General Information

 Objectives of the course

Processing and image analysis allow to extract the maximum information from the optical microscopy techniques applied. The Image J (Wayne Rasband, NIH, USA), free and open source software, has become an essential tool for processing and analysis of scientific digital images. The objective of this course is to provide, to the participants, the skills and strategies needed to process and analyze optical microscopy images using the open source software Image J.
The course consists of lectures and computer practice. The course will present the standard operating procedures with real applications of advanced optical microscopy. The combination of different image processing techniques will be used to identify, isolate and analyze specific elements of interest in each image. The course is addressed to researchers and professionals who require image processing and analysis in their work, and who are familiar with optical microscopy techniques or will have to work with them in the future.


10th Edition
30 of May 2012: 10-18h
31 of May 2012: 9-14h

11th Edition
5 of June 2012: 10-18h
6 of June 2012: 9-14h


Computer's room 2, 4t floor.
Facultat de Medicina.
C/ Casanova, 143
08036 Barcelona
mapa Campus Casanova

 General information

Number of participants: 20
Practice: 1 computer per person
Price: 120€ (the price includes the materials, coffe break and lunch)
Preregistration: through the website
More information: confomed@ccit.ub.edu

Introduction to Image J:

Creation. Installation. Running. Plugins. Macros.

Introduction to Digital Imaging:

Resolution. Depth. Format. Dimensions.

Image and movies (xyt, xyzt) processing:

Calibration. Channel split/merge. Look up tables (LUT). Brightness/contrast adjustment. Filters. Stacks. Projections. Orthogonal seccions. Three-dimensional reconstructions. Edition (text, scale bar, área, arrows, time…)

Image analysis:

- Quantification:

Treshold-based segmentation. Histogram. Morphometry. Intensity profiles. Image operations. Image series quantification (xyz, xyzt).

- Particles analysis:

Particle counter. Find Maxima. Particles mobility over time (particle tracking). Kimograms.

- Colocalization:

Introduction to the analysis of colocalization. Qualitative and quantitative methods of colocalization analysis.

Advanced strategies of analysis.

Introduction to Macros.

Solution of case studies proposed by participants.

Registration closed.


Dra. Maria Calvo
Advanced Optical Microscopy Technology. CCiTUB


Anna Bosch. Advanced Optical Microscopy Technology.. CCiTUB
Dr. Maria Calvo. Advanced Optical Microscopy Technology.. CCiTUB
Elisenda Coll. Advanced Optical Microscopy Technology.. CCiTUB
Kasia Gorka. Advanced Optical Microscopy Technology.. CCiTUB



Summarized information. +info
Promotional Flyer. +info

[Other Activities]

Highslide JS