This course is jointly organzied by Global BioImaging and Advanced Bioimaging Support (ABiS), an imaging infrastructure in Japan. The course will feature an overarching topic of image data including image analysis, data management and image data reuse.
During 3-5 July, the course will kick-off at the National Institute for Basic Biology in Okazaki, Japan and will feature the following: an image analysis component, both theoretical and practical sessions (duration: 2-2.5 days) taught by Ignacio Arganda-Carreras (Network of European BioImage Analysts [NEUBIAS]), Kagayaki Kato (NIBB, Japan) and Yusaku Ohata (NIBB, Japan) and two seminars featuring OMERO data management software and IDR image repository delivered by Open Microscopy Environment (OME) members, Jean-Marie Burel and Petr Walczysko.
The image analysis topics that will be covered in Okazaki include the following:
Image acquisition, formats and handling images
Registration and stitching
Visualization
Segmentation and thresholding
During 6-7 July, the course will continue at RIKEN Center for Biosystems Dynamics Research in Kobe, Japan and will feature workshops on OMERO data management software and seminars featuring BioImage Archive image repository delivered by Matthew Hartley (EMBL-EBI, United Kingdom) and SSBD database delivered by Shuichi Onami (RIKEN BDR, Japan). This course will also provide opportunities for the participants to network with each other and instructors.
The course is open to image analysts who provide image analysis as a service and imaging facility staff and managers as well as service providers in imaging/microscopy and image analysis.
This course will also provide opportunities for the participants to network with each other and the speakers.
Event format This event will take place in-person at National Institute for Basic Biology (3-5 July) and RIKEN Center for Biosystems Dynamics Research (6-7 July).
The possibility to join remotely will not be provided.
Registration fee There are no registration costs associated with this even (free of charge)
Speakers and instructors
Aybuke Kupcu Yoldas (BioImage Archive, European Bioinformatics Institute EMBL-EBI, United Kingdom)
Ignacio Arganda-Carreras (University of the Basque Country, Spain)
Jean-Marie Burel (Open Microscopy Environment, University of Dundee, United Kingdom)
Kagayaki Kato (National Institute for Basic Biology, Japan)
Matthew Hartley (BioImage Archive, European Bioinformatics Institute EMBL-EBI, United Kingdom)
Petr Walczysko (Open Microscopy Environment, University of Dundee, United Kingdom)
Shuichi Onami (RIKEN Center for Biosystems Dynamics Research BDR, Japan)
Yusaku Ohta (National Institute for Basic Biology, Japan)
Prerequisites for application
You must be employed by a nonprofit research institution (institute, university, etc.)
Your day-to-day work must involve one or more aspects of image data, for example, image analysis, data management and/or data reuse
You work in imaging facility as an imaging facility manager or staff, as a junior image analyst or work with image data management systems/workflows
Experience with microscopy but no to little experience with image analysis
Basic knowledge of ImageJ or Fiji
Successful applicants will have to bring in their own laptops for the course.
