steinbock-webinar

steinbock: a toolkit for processing multiplexed tissue images

https://www.scilifelab.se/event/steinbock-a-toolkit-for-processing-multiplexed-tissue-images/

Webinar material

• Slides
  • Hands-on session
  • Image visualization
• Webinar recording

Prerequisites (hands-on session)

Windows, Mac OS or Linux

Install Docker, see steinbock Docker prerequisites

Download the imaging mass cytometry (IMC) example data

Download the corresponding panel.csv file in steinbock format

Further resources

• steinbock online documentation
• Online analysis workflow for IMC data
• Workflow preprint

  Windhager et al. (2021). An end-to-end workflow for multiplexed image processing and analysis. bioRxiv.
  doi: 10.1101/2021.11.12.468357.

• Workflow publication

  Windhager et al. (2023). An end-to-end workflow for multiplexed image processing and analysis. Nature Protocols (accepted).
  doi: updated upon publication.

• Multiplexed Tissue Imaging Workshop 2023
  (January 2023; Bodenmiller Lab, ETH Zurich/University of Zurich)

Contact details

Jonas Windhager
[email protected]
SciLifeLab BioImage Informatics Facility