Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

Multicut brings automated neurite segmentation closer to human performance

Nature Methods volume 14, pages 101–102 (2017)Cite this article

Subjects

To the Editor:

This is a preview of subscription content

Access options

Buy article

Get time limited or full article access on ReadCube.

$32.00

Buy

All prices are NET prices.

Figure 1: The automated neurite segmentation pipeline and the influence of its components on performance.

References

  1. Kim, J.S. et al. Nature 509, 331–336 (2014).

    CAS  Article  Google Scholar 

  2. Arganda-Carreras, I. et al. Front. Neuroanat. 9, 142 (2015).

    Article  Google Scholar 

  3. Keuper, M. et al. In Intl. Conf. Comp. Vision, 1751–1759 (2015).

    Google Scholar 

  4. Andres, B. et al. Europ. Conf. Comp. Vision, Part III, (Eds. Fitzgibbon, A., Lazebnik, S. et al.) 778–791 (2012).

    Google Scholar 

  5. Beier, T. et al. IEEE Conf. Comp. Vision Patt. Recog., 3507–3516 (2015).

Download references

Acknowledgements

The authors would like to thank I. Arganda-Carreras for running all the blind evaluations on the ISBI2012 challenge and the SNEMI3D data and B. Andres for open-source code on the lifted multicut. We acknowledge support by DFG HA4364/6-1 and 8-1, SFB 1129, SFB 1134, RTG 1653, HGS MathComp and CellNetworks (F.A.H.).

Author information

Affiliations

  1. IWR, Heidelberg University, Heidelberg, Germany

    Thorsten Beier, Constantin Pape, Nasim Rahaman, Timo Prange, Ullrich Koethe, Anna Kreshuk & Fred A Hamprecht

  2. HHMI Janelia Research Campus, Ashburn, Virginia, USA

    Stuart Berg, Davi D Bock, Albert Cardona, Stephen M Plaza, Louis K Scheffer, Anna Kreshuk & Fred A Hamprecht

  3. BioEM, EPF Lausanne, Lausanne, Switzerland

    Graham W Knott

Authors
  1. Thorsten Beier
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Constantin Pape
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Nasim Rahaman
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Timo Prange
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Stuart Berg
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Davi D Bock
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Albert Cardona
    View author publications

    You can also search for this author in PubMed Google Scholar

  8. Graham W Knott
    View author publications

    You can also search for this author in PubMed Google Scholar

  9. Stephen M Plaza
    View author publications

    You can also search for this author in PubMed Google Scholar

  10. Louis K Scheffer
    View author publications

    You can also search for this author in PubMed Google Scholar

  11. Ullrich Koethe
    View author publications

    You can also search for this author in PubMed Google Scholar

  12. Anna Kreshuk
    View author publications

    You can also search for this author in PubMed Google Scholar

  13. Fred A Hamprecht
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Fred A Hamprecht.

Ethics declarations

Competing interests

The authors declare no competing financial interests.

Supplementary information

Supplementary Text and Figures

Supplementary Notes 1–9 (PDF 2340 kb)

Supplementary Software

Multicut Software (ZIP 3476 kb)

Rights and permissions

Reprints and Permissions

About this article

Verify currency and authenticity via CrossMark

Cite this article

Beier, T., Pape, C., Rahaman, N. et al. Multicut brings automated neurite segmentation closer to human performance. Nat Methods 14, 101–102 (2017). https://doi.org/10.1038/nmeth.4151

Download citation

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1038/nmeth.4151

Further reading

Search

Advanced search

Quick links

Nature Briefing

Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.

Get the most important science stories of the day, free in your inbox. Sign up for Nature Briefing