µP

microPublication Biology

Chung-Kuan Chen1ORCID logo, Yuichi Iino1ORCID logo, and Yu Toyoshima1,2§ORCID logo

1Department of Biological Sciences, Graduate School of Science, The University of Tokyo, Tokyo, 113-0022, Japan

2Department of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Chiba, 277-8562, Japan

§Correspondence to: Yu Toyoshima (ytoyo@bs.s.u-tokyo.ac.jp)

Abstract

Description

Methods

Reagents

Extended Data

  • Description: A python package for centerlines estimation. Resource Type: Software. DOI: 10.22002/11rsh-36g19
  • Description: A napari-plugin for centerlines refinement. Resource Type: Software. DOI: 10.22002/f4mjs-j0x86

Acknowledgements

Conflicts of Interest

Funding

Author Contributions

  • Chung-Kuan Chen: Software, Writing - original draft, Writing - review & editing, Visualization
  • Yuichi Iino: Conceptualization, Writing - review & editing, Software
  • Yu Toyoshima: Conceptualization, Funding acquisition, Project administration, Writing - review & editing

Reviewed By

Anonymous

Database Reference ID: WBPaper00070116

History

  • Received: 6/7/2026
  • Revision Received: 8/15/2026
  • Accepted: 8/27/2026
  • Published Online: 8/31/2026

References

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  2. 10.1093/genetics/77.1.71
  3. 10.1016/j.compbiomed.2025.110012
  4. 10.1038/s41598-023-38213-7
  5. 10.1038/s41586-020-2649-2
  6. 10.1371/journal.pcbi.1008914
  7. 10.1109/MCSE.2007.55
  8. 10.1038/s41592-018-0112-1
  9. 10.1098/rstb.2017.0375
  10. 10.1016/j.jneumeth.2025.110644
  11. 10.1007/s11263-023-01818-6
  12. 10.1038/s41593-018-0209-y
  13. 10.48550/ARXIV.1912.01703
  14. 10.1038/s41592-022-01426-1
  15. 10.1101/2025.11.23.689997
  16. 10.5281/ZENODO.3555620
  17. 10.1186/s12915-020-0745-2
  18. 10.7717/peerj.453
  19. 10.1038/s41592-019-0686-2
  20. 10.1371/journal.pcbi.1013345
  21. 10.1111/gtc.70098

Copyright

© 2026 by the authors. This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International (CC BY 4.0) License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Citation

microPublication Biology is published by

1200 E. California Blvd. MC 1-43 Pasadena, CA 91125

The microPublication project is supported by

The National Institute of Health -- Grant #: 1U01LM012672-01

microPublication Biology:ISSN: 2578-9430