Bringing Open Data to Whole Slide Imaging

Digit Pathol (2019). 2019 Apr:2019:3-10. doi: 10.1007/978-3-030-23937-4_1. Epub 2019 Jul 3.


Faced with the need to support a growing number of whole slide imaging (WSI) file formats, our team has extended a long-standing community file format (OME-TIFF) for use in digital pathology. The format makes use of the core TIFF specification to store multi-resolution (or "pyramidal") representations of a single slide in a flexible, performant manner. Here we describe the structure of this format, its performance characteristics, as well as an open-source library support for reading and writing pyramidal OME-TIFFs.

Keywords: OME-TIFF; open data; open file format; whole slide imaging.