Bringing Open Data to Whole Slide Imaging

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”) representatio...

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Bibliographic Details
Published inDigital Pathology Vol. 11435; pp. 3 - 10
Main Authors Besson, Sébastien, Leigh, Roger, Linkert, Melissa, Allan, Chris, Burel, Jean-Marie, Carroll, Mark, Gault, David, Gozim, Riad, Li, Simon, Lindner, Dominik, Moore, Josh, Moore, Will, Walczysko, Petr, Wong, Frances, Swedlow, Jason R.
Format Book Chapter Journal Article
LanguageEnglish
Published Switzerland Springer International Publishing AG 01.04.2019
Springer International Publishing
SeriesLecture Notes in Computer Science
Subjects
OME-TIFF
Open data
Open file format
Whole slide imaging
whole slide imaging
open data
open file format
OME-TIFF
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Summary: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.
Bibliography:S. Besson, R. Leigh and M. Linkert—These authors contributed equally to this work.
ISBN:3030239365
9783030239367
ISSN:0302-9743
1611-3349
DOI:10.1007/978-3-030-23937-4_1