jjjermiah/nbiatoolkit repository overview

⁠NBIA Toolkit

nbiatoolkit is a python package that provides programmatic access to query and download images from the National Biomedical Imaging Archive (NBIA) and The Cancer Imaging Archive (TCIA) databases.

⁠Features

• Use NBIA Guest account to access public data OR authenticate using OAuth with user credentials for limited access data (requires approved data access).
• Query NBIA database for metadata on collections, patients, studies, series, and images
• Download images from NBIA
  • Calculate MD5 checksums for downloaded images
  • Auto-sort DICOM files using a user-defined pattern of DICOM tags

See Documentation at NBIA-Toolkit Read The Docs⁠

⁠Using Docker Image

docker run --rm jjjermiah/nbiatoolkit:latest \
    python -c \
    "import nbiatoolkit; \
    client = nbiatoolkit.NBIAClient();  \
    print('Total Number of Collections:',  len(client.getCollections()))"