Course detail

Imaging Method Practice in Biomedicine

FEKT-MPA-ZBMAcad. year: 2024/2025

The course is aimed at deepening theoretical knowledge and practical skills in selected imaging methods. In particular, emphasis is placed on optical imaging, focusing on the study of camera properties and their applications.

1. Measurement of selected parameters of scientific and industrial cameras (comparison of CCD/CMOS technology, binning, subsampling, gain, noise measurement in darkness, rolling/global shutter).

2. Measurement of the flow of a medium through a capillary using contrast laser speckle imaging (influence of acquisition parameters on the quality and accuracy of flow rate estimation).

3. Matlab and real-time deep learning applications.

4. Measurement of contrast transfer function of imaging system.

5. Measurements using standard cameras, stereoscopy, stereo video sequence recording, estimation of calibration matrices.

6. Spectral camera, principle, image acquisition and processing. 

Language of instruction

English

Number of ECTS credits

3

Mode of study

Not applicable.

Guarantor

doc. Ing. Radim Kolář, Ph.D.

Department

Department of Biomedical Engineering (UBMI)

Offered to foreign students

Of all faculties

Entry knowledge

It is required knowledge of digital camera design and basic image processing techniques. Furthermore, knowledge of a programming language (Matlab, Python).  

Rules for evaluation and completion of the course

A maximum of 54 points can be earned during a semester. These points are assigned for active participation in laboratory activities and for the compilation of measurement results.
A maximum of 46 points can be obtained from the credit test. A minimum of 50% of the points from both of these activities is required for successful completion of the course.
 

Aims

The aim of the course is mainly to gain skills and additional knowledge related to the use of optical cameras in the field of 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
Lichtman, J. W., Conchello J.A. Fluorescence Microscopy, Nature Methods, 2(12), pp. 910-919, 2005

Recommended reading

Not applicable.

Classification of course in study plans

  • Programme MPC-BTB Master's, 2. year of study, summer semester, compulsory-optional
  • Programme MPA-BTB Master's, 2. year of study, summer semester, compulsory-optional

Type of course unit

 

Exercise in computer lab

26 hours, optionally

Teacher / Lecturer

doc. Ing. Radim Kolář, Ph.D.

Syllabus

1. Measurement of selected parameters of the CCD camera.

2. Measurement of the flow rate using changes in the contrast of the laser speckle noise.

3. CNN design in Matlab and its application on Rapsberry Pi platform.

4. Measurement of contrast transfer function of the imaging system.

5. Stereoscopic imaging and disparity map reconstruction.

6. Spectral camera measurements and image reconstruction.