National Total Body PET - Australian Imaging Service Demonstration

Logging into AIS XNAT

You can log in using:

• Australian Access Federation (AAF) - Your institutional login
• Unikey - USyd staff/students only
• Database - demo & role accounts only

Navigating to an imaging session

Descend through the tree

• Select the project
• Select the subject
• Select the session

Use the quick search

• Enter the session ID in the top right box

OHIF Viewer

• View images and thumbnails
• Browse DICOM tags
• Make masks
  • Export mask

File manager

• View full file-structure
• Explain about the resources under each scan
• Download individual files (good for HTML reports)

Downloading data

• Zip
  • No dependencies
  • Not suitable for large data files (e.g. TBP data)
• XNAT Desktop
  • Stand-alone Java application with UI
  • Good for large download batches
• XML catalog
  • Select a list of scans/resources
  • Download selection for later processing

Running pipelines

• Installed/enabled globally by site-administrator
• Project manager can enable them for project
• Demo launching dicom2niix pipeline
• Can be designed to run on
  • Scans
  • Sessions
  • Subjects
  • Projects
• Can be configured to run on data ingest
  • Particularly well-suited to QC pipelines
• Pipelines Stream of Australian Imaging Service

Downloading data via command-line (typically required for HPC)

• Switch to Jupyter notebook for examples