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EMBL BioImage Data Analysis

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cmci_ avatar

@EntraCod @COSTprogramme @NEUBIAS_COST Yes everyone indeed. Thanks for the suggestion.
About 1 hour, 42 mins ago by: Kota Miura (@cmci_)

cmci_ avatar

RT @SimonFlyvbjerg: Fresh off Springer's open access press: "Bioimage Data Analysis Workflows" - the book! #BioImageAnalysis https://t.co
About 6 hours, 26 mins ago by: Kota Miura (@cmci_)

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@COSTprogramme @NEUBIAS_COST Thanks to the authors and editors: @perrinepgil Sébastien Tosi Julien Colombelli… https://t.co/GVlRWoqGxr
About 7 hours, 7 mins ago by: Kota Miura (@cmci_)

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Now online, "Bioimage Data Analysis Workflow". https://t.co/stW12drKaS Thanks to the support by @COSTprogramme ,… https://t.co/pgJck70nW6
About 7 hours, 14 mins ago by: Kota Miura (@cmci_)

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RT @Datascience__: Dynamic allocation of computational resources for deep learning-enabled cellular image analysis with Kubernetes https://…
About 3 days, 7 hours ago by: Kota Miura (@cmci_)

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RT @mariana_deniz: Many thanks to the @NEUBIAS_COST instructors and organizers for an exciting and stimulating course on image analysis 😁😁…
About 3 days, 12 hours ago by: Kota Miura (@cmci_)
mainpages:courses:201903marburg

Bin-BW ImageJ workshop: Marburg Mar, 2019

Date

March 20th (W) and 21st (T), 2019

Introduction

As part of the initiative Bin-BW (Bioimage-Net Baden-Württemberg) the Cell Imaging Core Facility (Center for Tumor Biology and Immunology, University of Marburg) and the Bioimaging Center of the University of Konstanz offers workshops in image analysis based on the open-source software ImageJ.

The two-day introductory workshop teaches the basics of digital image processing and analysis for biological / biomedical studies. The goal of the workshop is that participants acquire basic knowledge and technique for measurements using image data.

Participation is most fruitful for learners who are conducting biological or medical research and are already using or are planning to use (light) microscopy for quantification purposes. If you already have generated data that poses a challenge of general interest, it is possible to integrate this data into the workshop agenda.

Participants should bring their own laptops. Please contact us in case this is not possible for you. Instructions on how to properly install and configure ImageJ will be provided before the workshop.

Location

The Bin-BW ImageJ workshop will take place at Zentrum für Tumor- und Immunbiologie, Philipps Universität Marburg, Hans-Meeerweinstr.3 on 20th and 21st of March, 2019 at room 00/0310. A detailed agenda is listed in the table below.

Workshop trainer

Kota Miura (kotapub@gmail.com), Freelance Bioimage Analyst & Vice Chair, NEUBAIS (The Network of European Bioimage Analysts)

References

Preparation before coming

1. Please download Fiji from the following URL.

2. Start Fiji, then in the menu [Help > Update…]

  • A window “ImageJ updater” opens. In that window, click the button “Manage update sites” at the bottom-left.
  • Another window called “Manage Update Sites” opens. From the list of update sites, tick “CMCI-EMBL”.
  • Close the “Manage update sites” window by clicking the button “close”.
  • In the “ImageJ updater” window, click the button “apply changes” at the bottom. It takes a while to download additional files. When completed, you will be asked to restart Fiji - so quit Fiji, and relaunch Fiji. Check the menu and there should be a new menu item “EMBL”.
  • More plugins to be installed will be announced later (using the update sites function, like explained above).

Schedule

The schedule below may change depending on the progress, but the order of topics will mostly be kept as it is listed.

mainpages/courses/201903marburg.txt · Last modified: 2019/02/27 08:11 by kota