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In the clinic, resected tissue samples are stained with Hematoxylin-and-Eosin(H&E) and/or Immunhistochemistry (IHC) stains and presented to the pathologistson glass slides or as digital scans for diagnosis and assessment of diseaseprogression. Cell-level quantification, e.g. in IHC protein expression scoring,can be extremely inefficient and subjective. We present DeepLIIF(https://deepliif.org), a first free online platform for efficient andreproducible IHC scoring. DeepLIIF outperforms current state-of-the-artapproaches (relying on manual error-prone annotations) by virtually restainingclinical IHC slides with more informative multiplex immunofluorescencestaining. Our DeepLIIF cloud-native platform supports (1) more than 150proprietary/non-proprietary input formats via the Bio-Formats standard, (2)interactive adjustment, visualization, and downloading of the IHCquantification results and the accompanying restained images, (3) consumptionof an exposed workflow API programmatically or through interactive plugins foropen source whole slide image viewers such as QuPath/ImageJ, and (4) autoscaling to efficiently scale GPU resources based on user demand.

DeepLIIF: An Online Platform for Quantification of Clinical Pathology Slides