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Related Experiment Video

Updated: May 15, 2025

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Fibre tracing in biomedical images: An objective comparison between seven algorithms.

Youssef Arafat1, Cristina Cuesta-Apausa2, Esther Castellano2

  • 1Department of Computer Science, School of Science and Technology, City St George's, University of London, London, United Kingdom.

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Summary

A new algorithm, Trace Ridges, accurately traces biomedical fibre-like structures like vasculature and nerves. It outperforms existing methods in accuracy and is nearly as fast as the quickest, offering a valuable tool for biomedical image analysis.

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Area of Science:

  • Biomedical image analysis
  • Computer vision
  • Medical imaging

Background:

  • Analyzing elongated structures in biomedical images is crucial for understanding processes like angiogenesis and treatment effects.
  • Existing methods for tracing vasculature, nerves, and extracellular matrix fibers have limitations.

Purpose of the Study:

  • To objectively compare six existing methodologies and one novel approach, Trace Ridges, for tracing fiber-like structures in biomedical images.
  • To introduce Trace Ridges as a fast, automatic algorithm for accurate delineation of these structures.

Main Methods:

  • Comparison of Edge Detection, CT Fire, Scale Space, Twombli, U-Net, Graph Based, and the novel Trace Ridges algorithm.
  • Utilized four distinct biomedical datasets with manual ground truth delineation.
  • Evaluated algorithms using three distance error metrics (total, average, maximum) and processing time, with options for pre-processing filters (none, Gaussian, DnCnn).

Main Results:

  • No single algorithm excelled across all metrics.
  • Trace Ridges achieved the lowest total distance error, indicating superior accuracy.
  • Trace Ridges demonstrated competitive processing speed, ranking second only to Edge Detection.

Conclusions:

  • Trace Ridges offers a significant advancement in accurately and efficiently tracing biomedical fiber-like structures.
  • The study provides a comprehensive comparison to guide the selection of appropriate tracing methodologies.
  • The developed algorithm and code are publicly available for research use.