Course detail

Applied Optical Imaging in Biomedical Applications

FEKT-MPA-AOZAcad. year: 2026/2027

The course focuses on deepening theoretical knowledge in the field of optical imaging techniques and evaluating the quality and properties of optical systems. It also focuses on acquiring practical skills related to these topics.

Language of instruction

English

Number of ECTS credits

2

Mode of study

Not applicable.

Guarantor

doc. Ing. Radim Kolář, Ph.D.

Department

Department of Biomedical Engineering (UBMI)

Entry knowledge

Knowledge of digital camera design and the basics of image processing and analysis is required. Knowledge of a programming language (Matlab, Python) is also required.   

Rules for evaluation and completion of the course

A maximum of 70 points can be earned during the semester. These points are awarded for active participation in laboratory exercises and for processing measurement results. A maximum of 30 points can be earned from the credit test. To successfully complete the course, it is necessary to earn at least 50% of the points from both of these activities.

Aims

The main objective of the course is to deepen and broaden knowledge in the field of optical imaging and to acquire the necessary skills related to the use of optical systems and cameras in biology and medicine.

Study aids

Not applicable.

Prerequisites and corequisites

Not applicable.

Basic literature

Holst, G.C., Lomhein, T.C. CMOS/CCD Sensors and Camera Systems, SPIE Press Book, 2011 (EN)
Lichtman, J. W., Conchello J.A. Fluorescence Microscopy, Nature Methods, 2(12), pp. 910-919, 2005 (EN)

Recommended reading

Not applicable.

Classification of course in study plans

  • Programme MPCN-BTB Master's 2 year of study, summer semester, compulsory-optional, profile core courses

  • Programme MPCN-BIO Master's

    specialization MPC-BIO_TECH , 2 year of study, summer semester, compulsory-optional

Type of course unit

 

Lecture

6 hours, optionally

Teacher / Lecturer

doc. Ing. Radim Kolář, Ph.D.

Syllabus


1. Experimental measurement of selected parameters of CCD/CMOS cameras.
2. Principle of laser speckle contrast imaging. 3. Software tools in microscopy.
4. Fundamentals of measuring the optical transfer function of an optical imaging system.
5. Theoretical basis for calculating the depth of field of an optical system.
6. Principles of multispectral imaging and image reconstruction from spectral data.
7. Principles of real-time image acquisition and processing, examples of cameras and dedicated software. 
 

Laboratory exercise

21 hours, optionally

Teacher / Lecturer

doc. Ing. Radim Kolář, Ph.D.

Syllabus

1. Measurement of selected parameters of CCD/CMOS cameras.
2. Measurement of flow velocity using laser speckle contrast imaging method.
3. Acquisition and processing of images in microscopy using NIS software.
4. Measurement of the optical transfer function of the imaging system.
5. Measurement of the depth of field of an optical system.
6. Measurement with a spectral camera and image reconstruction.
7. Application of a camera for real-time image acquisition and analysis.  

Individual preparation for laboratories

14 hours, optionally

Teacher / Lecturer

doc. Ing. Radim Kolář, Ph.D.

Syllabus

Before each laboratory assignment, it is necessary to study the specific topic using materials from lectures and, if necessary, other supporting materials. 

Individual preparation for an ending of the course

7 hours, optionally

Teacher / Lecturer

doc. Ing. Radim Kolář, Ph.D.