QuPath: Open source software for digital pathology image analysis

Bankhead, Peter; Loughrey, Maurice B.; Fernández, José A.; Dombrowski, Yvonne; McArt, Darragh G.; Dunne, Philip D.; McQuaid, Stephen; Gray, Ronan T.; Murray, Liam; Coleman, Helen G.; James, Jacqueline A.; Salto‐Tellez, Manuel; Hamilton, Peter W.

doi:10.1101/099796

preprintbioRxiv (Cold Spring Harbor Laboratory)Jan 12, 2017GREEN OA

QuPath: Open source software for digital pathology image analysis

PBPeter Bankhead MBMaurice B. Loughrey JAJosé A. Fernández YDYvonne Dombrowski DGDarragh G. McArt

Queen's University Belfast · Belfast Health and Social Care Trust

Indexed incrossref

Abstract

Abstract QuPath is new bioimage analysis software designed to meet the growing need for a user-friendly, extensible, open-source solution for digital pathology and whole slide image analysis. In addition to offering a comprehensive panel of tumor identification and high-throughput biomarker evaluation tools, QuPath provides researchers with powerful batch-processing and scripting functionality, and an extensible platform with which to develop and share new algorithms to analyze complex tissue images. Furthermore, QuPath’s flexible design makes it suitable for a wide range of additional image analysis applications across biomedical research.

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Topics & keywords

Topics

Keywords

Computer science
Scripting language
Extensibility
Software
Digital pathology
Open source
Image processing
Identification (biology)

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