Image analysis & data processing – June 25

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Overview

Join us for a comprehensive 5-day workshop that spans the full spectrum of bioimage analysis—from fundamental techniques to the latest innovations in data processing and microscopy. With several successful years of training under our belt, this course is designed for researchers at every level. You will work hands-on with state-of-the-art tools such as Napari for interactive visualization, Cellpose for robust segmentation, and TrackMate for precise tracking. In addition, the workshop covers advanced microscopy techniques, including mesoSPIM imaging, deconvolution methods, and single molecule localization microscopy data analysis using ThunderSTORM. Through a series of practical exercises, live demonstrations, and guided workflow testing, you will build, optimize, and troubleshoot bioimage analysis pipelines tailored to your research challenges. Our expert instructors provide personalized support and detailed explanations every step of the way, ensuring that you gain actionable insights and hands-on expertise in microscopy image processing and data analysis.

FOR REGISTRATION CLICK HERE

What You Will Learn

  • Basic to Advanced Image Processing:

From fundamental operations to more complex analytical workflows.

  • Segmentation Tools:

Learn to use methods such as Cellpose for robust cell segmentation.

  • Tracking and Localization:

Explore particle tracking and single-molecule localization with tools like TrackMate and ThunderSTORM.

  • Python-Based Analysis:

Gain insights into automating and scaling your workflows using Python libraries.

  • Interactive Visualization:

Hands-on experience with visualization tools like Napari.

  • Microscopy Innovations:

Engage with live demos on the latest imaging techniques, including mesoSPIM and super-resolution methods.

  • And more…

Format and Attendance

  • Hybrid Participation:

Attend on-site at Charles University or participate online.

  • Practical, Hands-On Approach:

Every session is designed to be interactive, with live demos and exercises. In-person participants receive direct hands-on assistance, while online attendees can follow along with the demonstrations.

  • Expert Guidance:

Our instructors provide personalized support throughout, ensuring that you can tailor your learning experience according to your level of familiarity with the subject.

Attendance Fee 

– Non-academic: 3630 Kč
– Academic: 605 Kč
– On-line: 605 Kč

Prices include 21% DPH. 

How to Register

Complete the Online Registračního Formuláře. Once you submit the form, payment information will be sent to you.
Note: Due to room limitations, the number of participants is limited to 20

Key Speakers

Dr. Marco Garbelli (University of Zurich, Switzerland)

Prof. Rainer Heintzmann (Friedrich Schiller University Jena, Germany)

Dr. Zdeněk Švindrych (Dartmouth College, United States of America)

Dr. Marco Zoccoler (TU Dresden, Germany)

Program

To be announced…

Stay tuned for a detailed schedule outlining lecture times, demonstrations, and interactive sessions.

Partners and funding

The course Inage analysis and data processing  is provided in cooperation with the following partners: Specion and Leica.

This initiative is funded by the Czech Bioimaging project: “National Infrastructure for Biological and Medical Imaging – LM2023050” funded by the Ministry of Education, Youth and Sports of the Czech Republic)

Questions?

For any inquiries about the workshop format, fees, or logistics, please contact us via our contact form.

We look forward to welcoming you to an exciting week of immersive, practical learning in bioimage analysis! Come and join us to elevate your current skills!