OpenPhi: An interface to access Philips iSyntax whole slide images for computational pathology

Nita Mulliqi, Kimmo Kartasalo, Henrik Olsson, Xiaoyi Ji, Lars Egevad, Martin Eklund, Pekka Ruusuvuori, Olga Vitek
2021 Bioinformatics  
Summary Digital pathology enables applying computational methods, such as deep learning, in pathology for improved diagnostics and prognostics, but lack of interoperability between whole slide image formats of different scanner vendors is a challenge for algorithm developers. We present OpenPhi - Open PatHology Interface, an Application Programming Interface for seamless access to the iSyntax format used by the Philips Ultra Fast Scanner, the first digital pathology scanner approved by the
more » ... d States Food and Drug Administration. OpenPhi is extensible and easily interfaced with existing vendor-neutral applications. Availability and implementation OpenPhi is implemented in Python and is available as open-source under the MIT license at: https://gitlab.com/BioimageInformaticsGroup/openphi. The Philips Software Development Kit is required and available at: https://www.openpathology.philips.com.
doi:10.1093/bioinformatics/btab578 pmid:34358287 pmcid:PMC8570784 fatcat:zv3t3yxfx5h7tljqi4xdespp7m