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

SVI and the Department of Biosystems Science and Engineering (D-BSSE, Single Cell Unit) organize a 2 day workshop on Image Restoration, Visualization and Analysis. The workshop will cover the fundamentals of image acquisition, how to avoid imaging pitfalls, the restoration of various microscopy modalities including light-sheet, the visualization and analysis of 5D data, the Huygens Remote Manager (HRM), and much more.

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


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