I2K 2020
Interactive 3D and virtual reality visualization for scientific images with sciview
Tutors:
Kyle Harrington, kyle.harrington@mdc-berlin.de
Ulrik Günther, ulrik.guenther@hzdr.de
Sessions:
2020-11-30 14:00 – 2020-11-30 17:00 UTC
2020-12-01 08:00 – 2020-12-01 11:00 UTC
For more details on the 2020 I2K workshop see: https://www.janelia.org/you-janelia/conferences/from-images-to-knowledge-with-imagej-friends/virtual-workshop-program
Pre-workshop instructions
Getting Fiji
Follow the Fiji installation instructions, if it is not already installed.
Install the sciview update site using these instructions
For Linux64, try our prepackaged Linux64 Fiji here if you have issues
Getting the data
scripts used in the workshop can be downloaded here - if you don't want to use git, you can just click the green Code button, and click Download ZIP
data for the 3D segmentation demo can be downloaded here from the CREMI challenge
Developer session
Please sign up for a Github account if you do not already have one. If you are proficient at git, then this is not necessary
To follow along with the developer session, we strongly recommend downloading IntelliJ. It will be difficult to provide support for any other development environment during the tutorial session.
Syllabus
Introductions (Ulrik, Kyle, and everyone attending)
Getting your sciview and development environment setup
Overview of the sciview project
Making your first scene
Working with volumetric data
Working with meshes
Creating sciview scripts
Making your first sciview demo command
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