Efficient image analysis for large-scale next generation histopathology using pAPRica Article Swipe
Jules Scholler
,
Joel Jonsson
,
Tomás Jordá-Siquier
,
Ivana Gantar
,
Laura Batti
,
Bevan L. Cheeseman
,
Stéphane Pagès
,
Ivo F. Sbalzarini
,
Christophe M. Lamy
·
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1101/2023.01.27.525687
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1101/2023.01.27.525687
The large size of imaging datasets generated by next-generation histology methods limits the adoption of those approaches in research and the clinic. We propose pAPRica (pipelines for Adaptive Particle Representation image compositing and analysis), a framework based on the Adaptive Particle Representation (APR) to enable efficient analysis of large microscopy datasets, scalable up to petascale on a regular workstation. pAPRica includes stitching, merging, segmentation, registration, and mapping to an atlas as well as visualization of the large 3D image data, achieving 100+ fold speedup in computation and commensurate data-size reduction.
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Metadata
- Type
- preprint
- Language
- en
- Landing Page
- https://doi.org/10.1101/2023.01.27.525687
- https://www.biorxiv.org/content/biorxiv/early/2023/01/28/2023.01.27.525687.full.pdf
- OA Status
- green
- Cited By
- 3
- References
- 24
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4318401332
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4318401332Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1101/2023.01.27.525687Digital Object Identifier
- Title
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Efficient image analysis for large-scale next generation histopathology using pAPRicaWork title
- Type
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preprintOpenAlex work type
- Language
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enPrimary language
- Publication year
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2023Year of publication
- Publication date
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2023-01-28Full publication date if available
- Authors
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Jules Scholler, Joel Jonsson, Tomás Jordá-Siquier, Ivana Gantar, Laura Batti, Bevan L. Cheeseman, Stéphane Pagès, Ivo F. Sbalzarini, Christophe M. LamyList of authors in order
- Landing page
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https://doi.org/10.1101/2023.01.27.525687Publisher landing page
- PDF URL
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https://www.biorxiv.org/content/biorxiv/early/2023/01/28/2023.01.27.525687.full.pdfDirect link to full text PDF
- Open access
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YesWhether a free full text is available
- OA status
-
greenOpen access status per OpenAlex
- OA URL
-
https://www.biorxiv.org/content/biorxiv/early/2023/01/28/2023.01.27.525687.full.pdfDirect OA link when available
- Concepts
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Image stitching, Computer science, Petascale computing, Scalability, Speedup, Visualization, Representation (politics), Computation, Segmentation, Compositing, Computer vision, Data mining, Artificial intelligence, Image (mathematics), Parallel computing, Algorithm, Database, Law, Political science, PoliticsTop concepts (fields/topics) attached by OpenAlex
- Cited by
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3Total citation count in OpenAlex
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2024: 2, 2023: 1Per-year citation counts (last 5 years)
- References (count)
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24Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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