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Mon 14 May - Tue 15 May 2018
09:30 - 17:30

Venue: Bioinformatics Training Room, Craik-Marshall Building

Provided by: Bioinformatics


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GBI/ELIXIR/EuBI/NEUBIAS hackathon for image analysis training material re-use

Mon 14 May - Tue 15 May 2018


This 2-days workshop will bring together bioimage analysts, trainers and developers from NEUBIAS, EuroBioImaging and Global BioImaging, as well as ELIXIR’s Bioschemas and TeSS developers, and anyone willing to contribute, to foster new collaborations between ELIXIR and key initiatives from the image analysis community, to:

  • Build a collection of curated image analysis training materials. Many materials are currently available online for several topics but no consistent curation has been applied to them to make them easily discoverable. During the workshop we will collate materials and ensure that, for each image analysis workflow, a minimum set of training materials is available, including slides, practical exercises, Docker container, etc.
  • Improve materials’ annotations (introducing full BioSchemas compliance) and align them with existing ELIXIR efforts (linking to TeSS). During the workshop, materials will be curated to ensure that they are properly described, according to the existing ELIXIR guidelines, and BioSchemas compliant. Consequently the curation will enable materials, hosted by individual providers, to be discoverable via TeSS.
  • Increase the number of Docker/Virtual Machines (VMs) available for easy installation of image analysis training environments. We will focus on: (i) specific pipelines for which containers currently do not exist, (ii) workflows that are of interest to the NEUBIAS/GBI communities and (iii) for which expertise will be available among the workshop participants. This would be incredibly helpful for running future image analysis courses, including the next GBI course planned for October 2018, as it would increase portability of training environments, reducing the burden of lengthy, and often troublesome, software installations.

Number of sessions: 2

# Date Time Venue Trainer
1 Mon 14 May 2018   09:30 - 17:30 09:30 - 17:30 Bioinformatics Training Room, Craik-Marshall Building map Dr Gabriella Rustici
2 Tue 15 May 2018   09:30 - 17:30 09:30 - 17:30 Bioinformatics Training Room, Craik-Marshall Building map Dr Gabriella Rustici

Workshop, round-table discussions, presentations




Once a year


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