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EXACT: a collaboration toolset for algorithm-aided annotation of images with annotation version control.

Christian Marzahl1,2, Marc Aubreville3,4, Christof A Bertram5

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The EXACT platform facilitates collaborative image analysis across disciplines, streamlining data annotation and management for research. This open-source tool supports diverse image types and integrates deep learning for enhanced scientific discovery.

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Area of Science:

  • Computational Biology
  • Medical Informatics
  • Bioimage Analysis

Background:

  • Multidisciplinary image data access and annotation accelerate scientific progress.
  • Ensuring high-quality, multi-purpose datasets through annotation tracking is challenging and labor-intensive.

Purpose of the Study:

  • To introduce the Expert Algorithm Collaboration Tool (EXACT), an open-source platform for collaborative interdisciplinary image analysis.
  • To provide a flexible and adaptable solution for managing and annotating diverse image datasets.

Main Methods:

  • Developed EXACT as an open-source online platform supporting both online and offline collaborative analysis.
  • Implemented a flexible plugin system for diverse applications, including mitotic figure counting, annotation validation, and deep learning integration.
  • Integrated a version control system for tracking dataset changes and linking results to specific data versions.

Main Results:

  • EXACT supports large-scale image data, including multi-gigapixel medical whole slide images and image series with thousands of images.
  • The platform has been successfully applied to various annotation tasks, demonstrating its versatility.
  • Applications include deep learning-assisted cytology scoring, multi-center whole slide image tumor annotation, and whale sound spectroscopy clustering.

Conclusions:

  • EXACT offers a robust, freely available solution for collaborative, interdisciplinary image analysis and annotation.
  • The platform's flexibility and version control enhance data quality and reproducibility in research.