OpenPhi

OpenPhi provides a standardized programmatic interface to access Philips iSyntax whole-slide images (WSIs) from the Philips Ultra Fast Scanner, enabling interoperable computational analysis and the development of deep-learning-based diagnostic and prognostic methods in digital pathology.


Key Features:

  • iSyntax access: Provides programmatic read access to iSyntax-formatted whole-slide images produced by the Philips Ultra Fast Scanner.
  • Philips scanner compatibility: Compatible with WSIs produced by the Philips Ultra Fast Scanner (iSyntax).
  • Python implementation: Implemented in Python to facilitate integration into analysis pipelines.
  • API for computational analysis: Exposes an API for integration into computational-image-analysis and deep-learning workflows for diagnostics and prognostics.
  • Dependency on Philips SDK: Requires the Philips Software Development Kit (SDK) for full functionality and access to iSyntax content.
  • Interoperability: Enables integration of iSyntax WSIs into vendor-neutral computational applications.

Scientific Applications:

  • Deep learning for diagnostics: Supports training and deployment of deep-learning models on iSyntax WSIs for diagnostic tasks.
  • Prognostic modeling: Enables development of prognostic algorithms using whole-slide image data.
  • Computational pathology algorithm development: Facilitates algorithm development and evaluation on clinical-grade WSI data from the Philips Ultra Fast Scanner.
  • Quantitative image analysis: Provides standardized access for quantitative feature extraction and image-based biomarker studies.

Methodology:

Implements a Python API that accesses iSyntax-formatted WSIs via the Philips Software Development Kit (SDK).

Topics

Details

License:
MIT
Cost:
Free of charge
Tool Type:
command-line tool
Operating Systems:
Mac, Linux, Windows
Programming Languages:
Python
Added:
12/18/2021
Last Updated:
12/18/2021

Operations

Publications

Mulliqi N, Kartasalo K, Olsson H, Ji X, Egevad L, Eklund M, Ruusuvuori P. OpenPhi: an interface to access Philips iSyntax whole slide images for computational pathology. Bioinformatics. 2021;37(21):3995-3997. doi:10.1093/bioinformatics/btab578. PMID:34358287. PMCID:PMC8570784.

PMID: 34358287
PMCID: PMC8570784
Funding: - Swedish Research Council: 2019-01466, 2020-00692 - Academy of Finland: 334782, 335976, 341967