Project: Optimize DICOMweb access to IDC data

[DanielaSchacherer]

Draft Status

Draft - team will hold off on page creation

Category

DICOM

Key Investigators

• Daniela Schacherer (Fraunhofer MEVIS)
• David Clunie (PixelMed, USA)
• Steve Pieper (Isomics, Inc., USA)
• Andrey Fedorov (BWH, USA)

Project Description

As the DICOM standard is increasingly used in digital pathology imaging, conversion of available datasets from proprietary formats into DICOM format can make the data more FAIR and improve transparency and reproducibility of research conducted with these data. For this reason, the NCI Imaging Data Commons (IDC) hosts all its data in DICOM format.

DICOMweb is a set of RESTful services that allows search, access and storage of DICOM objects via network. IDC data are also available (currently outdated, but soon to be updated) from a DICOM store. This project aims to specifically try to optimize access to digital pathology IDC data via DICOMweb capable libraries (wsidicom, dicomslide, ez-wsi-dicomweb) based on prior works on that issue.

Objective

1. Objective A: Have a code snippet for randomly and efficiently selecting tiles of arbitrary size from the IDC-DICOM store.
2. Objective B (if time permits): Have an efficiency comparison for different libraries used for DICOMweb access.

Approach and Plan

Objective A:

1. Summarize current state (document).
2. Implement DICOMweb access (problems have priorily been observed wrt authorization).

Objective B:

1. Create scripts for efficiency comparison.
2. Summarize results.

Progress and Next Steps

1. Describe specific steps you have actually done.

Illustrations

No response

Background and References

Background reading:

• https://www.dicomstandard.org/using/dicomweb

Further resources:

• Related earlier project from Project Week 40: Current state of DICOMweb for pathology.

[fedorov]

@DanielaSchacherer I would list here the specific libraries you looked into, and the current most promising one (https://github.com/GoogleCloudPlatform/EZ-WSI-DICOMweb - right?).

Do we have any relevant tutorial or repository you prepared to reference here as well?