10 Dec 2018 - 11 Dec 2018
09:00 - 16:00

Organizers: Dr. Aaron Ponti (D-BSSE), MSc Daniel Sevilla (SVI)
Location: D-BSSE Single Cell Facility

Events, Workshop / O. Biehlmaier

Huygens workshop at the D-BSSE Single Cell Facility

As a biologist and a microscopist you want images with higher resolution while at the same time keeping the damage to your cells lower and your cells happier for a longer time. We can help! Scientific Volume Imaging and the Department of Biosystems Science and Engineering (D-BSSE, Single Cell Unit) organize a 2-day workshop on Image Restoration, Visualization and Analysis. In this course, you will learn how just a few minor adaptations can optimize your acquisition at the microscope and how you can get far better images after post-processing with the Huygens deconvolution and analysis software. Three-fold resolution improvements are easily attainable, and some systems show an even higher resolution increase! Join us and see what the automated Huygens post-processing can bring to your images. Many microscopy facilities in Switzerland and abroad own licenses for the Huygens software, so there is a good chance that you can access the software at your institution and put what you will learn in this course in practice on your images. The course training staff is composed of experts in the field, with both extensive teaching experience and in-depth knowledge in image acquisition, restoration, and analysis. So everyone, from students at the beginning of their Ph.D. that are just starting to work with light microscopy all the way to experienced users with complex questions, will benefit from this course.

Contact: Aaron Ponti aaron.ponti@bsse.ethz.ch

Registration: https://goo.gl/forms/HvlRayu9rWnpQoMk1
The participants are invited to bring their laptop for the hands-on sessions.

Day 1: December 10th, 2018 - Image Restoration and Visualization

09.00 - 09.15: Welcome – Coffee/Tea

09.15 - 10.00: General Introduction to microscopy image formation and image
restoration

Light/wave properties, deconvolution, point spread function (theoretical vs experimental), imaging issues and pitfalls.

10.00 - 10.15: Short break

10:15 - 11.00: Huygens Deconvolution and Batch processing
Improve signal to noise and resolution with the Huygens Deconvolution Wizard; schedule multiple jobs.

11:00 - 12:00: All visualization options and tools in Huygens
Slicer, Twin-slicer, Ortho-slicer, MIP, Volume renderer, Surface renderer, MovieMaker, Cropper.

12:00 – 12:30: Practice with own or example data

12.30 - 13.15: Lunch Break

13:15 - 14.00: Light Sheet Deconvolution and Fusion
Deconvolve and fuse multiple views from a Light-Sheet microscope.

14:00 - 14:15: Chromatic Aberration Corrector
How do imaging artifacts affect my analysis? How do I treat such data?

14.15 - 14.30: Short break 14:30 - 15.00: Image Stitcher
Create and deconvolve mosaics from image tiles.

15:00 - 17:00: Single Cell Facility Guided Tour and Apéro

 

Day 2: December 11th, 2018 - Image Restoration, Visualization and Analysis

09.00 - 09.15: Welcome – Coffee/Tea

09:15 - 09.45: Object Stabilizer
Correct unwanted movement and vibration with the Object Stabilizer.

09:45 - 10.40: Colocalization Analyzer
How to measure colocalization, which coefficients should I use, and how to do this with Huygens.

10:40 – 11:10: Practice with own or example data

11:10 – 11:25: Short break

11:25 – 12:15: Object Analyzer
Analyze your microscopy images with the Object Analyzer.

12.15 - 13.00: Lunch Break 13:00 – 13:45: Object Tracker
How to detect and analyze tracks of moving objects with the Object Tracker.

13:45 – 14:15: Practice with own or example data

14.15 - 14.30: Short Break

14:30 - 15.15: Huygens Remote Manager + Core (and hands-on)
Run Huygens deconvolution and analysis jobs from your web browser using HRM.

15:15 – 16:00: Practice with own or example data

16:00: Coffee and Tea with evaluation, certificate of participation, and end of the course

Contact: Aaron Ponti aaron.ponti@bsse.ethz.ch


Export event as iCal