Skip to main content
SpringerLink
Log in

ADAPT: Adaptive Thresholds for Feature Extraction

  • Conference paper
  • First Online:
Topological Methods in Data Analysis and Visualization IV (TopoInVis 2015)

Part of the book series: Mathematics and Visualization ((MATHVISUAL))

Included in the following conference series:

  • 1395 Accesses

Abstract

Threshold-based feature definitions remain one of the most widely used and most intuitive choice in a wide range of scientific areas. However, it is well known that in many applications selecting a single optimal threshold is difficult or even impossible. Common examples of this are quantities with locally exponential behavior like the scalar dissipation rate in turbulent combustion simulations or indicator functions, such as, vorticity or delta popular in defining vortices. In these cases, local thresholds defined, for example, using contour trees can provide significantly better results, but typically require a data analysis expert to create and use. We present the ADAPT framework a new open source code that transforms a given scalar field such that global thresholds in the resulting field correspond to a variety of local thresholds in the original data. Consequently, the resulting field can be easily processed using any of the existing tool chains and provides scientists easy access to a wide variety of more advanced feature definitions. Currently, the package provides two techniques to define local thresholds: The relevance transform originally developed for combustion analysis and a model based fit initially designed to extract eddies in global ocean simulations. Furthermore, it provides an extendable API to easily add other transforms.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Log in via an institution
Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 149.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 199.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 199.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Ashurst, W.T., Kerstein, A., Kerr, R., Gibson, C.: Alignment of vorticity and scalar gradient with strain rate in simulated Navier-Stokes turbulence. Phys. Fluids 30(8), 2343– (1987)

    Google Scholar 

  2. Bennett, J., Krishnamurthy, V., Liu, S., Pascucci, V., Grout, R., Chen, J., Bremer, P.T.: Feature-based statistical analysis of combustion simulation data. IEEE Trans. Vis. Comput. Graph. 17(12), 1822–1831 (2011)

    Article  Google Scholar 

  3. Bremer, P.T., Weber, G., Tierny, J., Pascucci, V., Day, M., Bell, J.B.: Interactive exploration and analysis of large scale simulations using topology-based data segmentation. IEEE Trans. Vis. Comput. Graph. 17(9), 1307–1324 (2011)

    Article  Google Scholar 

  4. Carr, H., Snoeyink, J., Axen, U.: Computing contour trees in all dimensions. Comput. Geom. Theory Appl.24(3), 75–94 (2003)

    Article  MathSciNet  MATH  Google Scholar 

  5. Carr, H., Snoeyink, J., van de Panne, M.: Simplifying flexible isosurfaces using local geometric measures. In: Proceedings of IEEE Visualization, pp. 497–504. IEEE Computer Society (2004)

    Google Scholar 

  6. Chakraborty, P., Balachandar, S., Adrian, R.J.: On the relationships between local vortex identification schemes. J. Fluid Mech. 535, 189–214 (2005)

    Article  MathSciNet  MATH  Google Scholar 

  7. Chen, J.H., Choudhary, A., deSupinski, B., DeVries, M., Hawkes, E.R., Klasky, S., Liao, W.K., Ma, K.L., Mellor-Crummey, J., Podhorszki, N., Sankaran, R., Shende, S., Yoo, C.S.: Terascale direct numerical simulations of turbulent combustion using s3d. Comput. Sci. Discovery 2, 015001 (2009)

    Google Scholar 

  8. Fabian, N., Moreland, K., Thompson, D., Bauer, A., Marion, P., Gevecik, B., Rasquin, M., Jansen, K.: The paraview coprocessing library: a scalable, general purpose in situ visualization library. In: Proceedings of IEEE Symposium on Large Data Analysis and Visualization (LDAV), pp. 89–96 (2011)

    Google Scholar 

  9. Gibson, C.H.: Isoenstrophy points and surfaces in turbulent flow and mixing. Fluid Dyn. Res. 3(1–4), 331–336 (1988)

    Article  Google Scholar 

  10. Grout, R., Gruber, A., Kolla, H., Bremer, P.T., Bennett, J., Gyulassy, A., Chen, J.: Heat release and turbulence statistics from a DNS of reacting jet in cross- flow parameterized in a jet natural coordinate system developed from scalar quantities. In: Proceedings of 3th International Conference on Numerical Combustion (2011)

    Google Scholar 

  11. Grout, R., Gruber, A., Kolla, H., Bremer, P.T., Bennett, J., Gyulassy, A., Chen, J.: A direct numerical simulation study of turbulence and flame structure in a round jet in cross-flow. J. Fluid Mech.706, 351–383 (2012)

    Article  MATH  Google Scholar 

  12. Jeong, J., Hussain, F.: On the identification of a vortex. J. Fluid Mech. 285, 69–94 (1995)

    Article  MathSciNet  MATH  Google Scholar 

  13. Mascarenhas, A., Grout, R.W., Bremer, P.T., Hawkes, E.R., Pascucci, V., Chen, J.: Topological feature extraction for comparison of terascale combustion simulation data. In: Pascucci, V., Tricoche, X., Hagen, H., Tierny, J. (eds.) Topological Methods in Data Analysis and Visualization: Theory, Algorithms, and Applications. Mathematics and Visualization, pp. 229–240. Springer, Berlin (2011)

    Chapter  Google Scholar 

  14. Petersen, M., Williams, S., Maltrud, M., Hecht, M., Hamann, B.: A three-dimensional eddy census of a high-resolution global ocean simulation. J. Geophys. Res. 118, 1759–1774 (2013)

    Article  Google Scholar 

  15. Petersen, M., Williams, S., Maltrud, M., Hecht, M., Hamann, B.: A three-dimensional eddy census of a high-resolution global ocean simulation – supplementary information (2015). http://onlinelibrary.wiley.com/doi/10.1002/jgrc.20155/suppinfo

    Google Scholar 

  16. Schneider, D., Wiebel, A., Carr, H., Hlawitschka, M., Scheuermann, G.: Interactive comparison of scalar fields based on largest contours with applications to flow visualization. IEEE Trans. Vis. Comput. Graph. 14, 1475–1482 (2008)

    Article  Google Scholar 

  17. Schneider, D., Heine, C., Carr, H., Scheuermann, G.: Interactive comparison of multifield scalar data based on largest contours. Comput. Aided Geom. Des. 30(6), 521–528 (2013)

    Article  MathSciNet  MATH  Google Scholar 

  18. Tanahashi, M., Miyauchi, T., Ikeda, J.: Scaling law of coherent fine scale structure in homogeneous isotropic turbulence. In: Proceedings of 11th Symposium on Turbulent Shear Flows, Grenoble, France, pp. 4–17 (1997)

    Google Scholar 

  19. van Kreveld, M.J., van Oostrum, R., Bajaj, C.L., Pascucci, V., Schikore, D.: Contour trees and small seed sets for isosurface traversal. In: Symposium on Computational Geometry, pp. 212–220 (1997)

    Google Scholar 

  20. Weber, G., Dillard, S., Carr, H., Pascucci, V., Hamann, B.: Topology-controlled volume rendering. IEEE Trans. Vis. Comput. Graph. 13(2), 330–341 (2007)

    Article  Google Scholar 

  21. Williams, S., Petersen, M., Bremer, P.T., Hecht, M., Pascucci, V., Ahrens, J., Hlawitschka, M., Hamann, B.: Adaptive extraction and quantification of atmospheric and oceanic vortices. IEEE Trans. Vis. Comput. Graph. 17(12), 2088–2095 (2011)

    Article  Google Scholar 

Download references

Acknowledgements

This material is based upon work supported by the U.S. Department of Energy, Office of Science, Office of Advanced Scientific Computing Research, Scientific Discovery through Advanced Computing (SciDAC) program. This work was performed under the auspices of the U.S. Department of Energy by Lawrence Livermore National Laboratory under Contract DE-AC52-07NA27344. UCRL LLNL-CONF-681469.

Author information

Authors and Affiliations

  1. Center for Applied Scientific Computing, Lawrence Livermore National Laboratory, Livermore, CA, USA

    Peer-Timo Bremer

Authors
  1. Peer-Timo Bremer
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Peer-Timo Bremer .

Editor information

Editors and Affiliations

  1. University of Leeds, Leeds, United Kingdom

    Hamish Carr

  2. Department of Computer Science, Technical University of Kaiserslautern, Kaiserslautern, Germany

    Christoph Garth

  3. School of Computer Science and Communication, KTH Royal Institute of Technology, Stockholm, Sweden

    Tino Weinkauf

Rights and permissions

Reprints and permissions

Copyright information

© 2017 Springer International Publishing AG

About this paper

Cite this paper

Bremer, PT. (2017). ADAPT: Adaptive Thresholds for Feature Extraction. In: Carr, H., Garth, C., Weinkauf, T. (eds) Topological Methods in Data Analysis and Visualization IV. TopoInVis 2015. Mathematics and Visualization. Springer, Cham. https://doi.org/10.1007/978-3-319-44684-4_18

Download citation

Publish with us

Policies and ethics

Search

Navigation