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MIAP Workshop Series 2019 | Expanding the ZEISS Microscopy Platform - Automation and Image Analysis Solutions based on OAD and APEER

The goal of this 4-day workshop is to teach and train participants how to employ the ZEISS software ecosystem for their own projects in image processing, analysis and microscope automation. We will discuss the latest developments in image analysis and machine learning, including the novel free image processing platform APEER, which enables users to exchange image processing modules and assemble them into powerful processing workflows. You will learn how to use APEER in the cloud and how to set up a local APEER solution based on the ACQUIFER HIVE system. Basic knowledge in light microscopy and scripting is required. The registration fee of 100 € per person covers lunch (finger food), refreshments and coffee & tea breaks with some snacks and sweets for all days of the workshop.
Wann 04.11.2019 um 09:00 bis
07.11.2019 um 17:00
Wo Albert-Ludwigs University Freiburg, Center for Biological Systems Analysis (ZBSA), Life Imaging Center (LIC), Habsburgerstr. 49, 79104 Freiburg im Breisgau, GERMANY
Name
Kontakttelefon +49 761 203 97131
Teilnehmer (Dr. Sebastian Rhode, Dr. Marion Lang, Dr. Roland Nitschke)
Termin übernehmen vCal
iCal


Referent/Referentin:
Dr. Sebastian Rhode, Dr. Marion Lang, Dr. Roland Nitschke

Termin:
Montag, 04.11.2019, 09:00 Uhr - Donnerstag, 07.11.2019, 17:00 Uhr

Ort:
Albert-Ludwigs University Freiburg, Center for Biological Systems Analysis (ZBSA), Life Imaging Center (LIC), Habsburgerstr. 49, 79104 Freiburg im Breisgau, GERMANY

Termin übernehmen:
vCal iCal

Ausführliche Beschreibung:

We will show best practices and application examples in a hands-on session focused on: 

  • How to automate image acquisition and analysis using OAD scripts (Open Application Development)
  • How to set up adaptive feedback experiment workflows in combination with APEER, Fiji/ImageJ etc.
  • How to leverage the full potential of ZEN Blue and 3rd party image processing in your image processing and analysis workflows
  • How to create your own APEER modules
  • How to build your own local APEER server using the HIVE solution from ACQUIFER.

 

The workshop will include lectures, discussions and extensive hands-on sessions using the microscope infrastructure of the Life Imaging Center (LIC). 
Participants are invited to give a talk about their workshop-related projects, research (requirements) and custom solutions. 
Participants are also encouraged to bring their own samples or experimental workflows, discuss them with the teachers and derive custom solutions for their individual microscopy and image analysis challenges. Please contact us in advance about the prerequisites.

Basic knowledge in light microscopy and scripting is required.

  

More information:

The ZEN Blue software is a powerful and flexible microscopy software for image acquisition and analysis. Its Open Application Development (OAD) interface allows for automation of workflows to create advanced experiments that link image acquisition and analysis. This allows for example to track migrating or growing cells or change imaging parameters depending e.g. on cell morphology changes during image acquisition. 

Open Application Development (OAD) uses powerful Python scripts inside ZEN Blue to simplify, customize and automate your workflows. The CZI-API and BioFormats allow to access CZI files from external applications. Users can analyze and exchange their data with other external applications (e.g. FiJi, Python, CellProfiler, Matlab, Excel,...). OAD allows to create "smart" experiments with Exp. Feedback and Exp. Designer and to modify the acquisition on-the-fly based on online image analysis and external inputs.

 

The registration fee of 100 € per person covers lunch (finger food), refreshments and coffee & tea breaks with some snacks and sweets for all days of the workshop. 



Interne Verantwortlichkeit:
Zentrum für Biosystemanalyse, CF Imaging

Veranstaltende Institution(en):
Carl Zeiss Microscopy GmbH ZEISS Group Kistlerhofstr. 75 81379 Munich, Germany

Kontaktperson:
Name: Tobias Wernet
Tel: +49 761 203 97131
E-Mail: tobias.wernet@zbsa.uni-freiburg.de

Webadresse:
https://miap.eu/miap-events/miap-workshops/2019-11-zeiss-oad-apeer/

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