Abstract
Structural adaptive smoothing provides a new concept of edge-preserving non-parametric smoothing methods. In imaging it employs qualitative assumption on the underlying homogeneity structure of the image. The chapter describes the main principles of the approach and discusses applications ranging from image denoising to the analysis of functional and diffusion weighted Magnetic Resonance experiments.
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References
Adler, R.J.: On excursion sets, tube formulae, and maxima of random fields. Ann. Appl. Probab. 10(1), 1–74 (2000)
Adler, D., Nenadić, O., Zucchini, W.: RGL: a R-library for 3D visualization with OpenGL. In: Braverman, A. (ed.) Proceedings of the 35th Symposium on the Interface: Computing Science and Statistics 2003 Security and Infrastructure Protection, Interface 2003, Salt Lake City, USA, March 12–15, 2003. Computing Science and Statistics, vol. 35. Curran Associates, Rostrevor (2003)
Arsigny, V., Fillard, P., Pennec, X., Ayache, N.: Log-Euclidean metrics for fast and simple calculus on diffusion tensors. Magn. Reson. Med. 56(2), 411–421 (2006)
Basser, P.J., Pajevic, S.: Statistical artefacts in diffusion tensor MRI (DT-MRI) caused by background noise. Magn. Reson. Med. 44(1), 41–50 (2000)
Basser, P.J., Mattiello, J., Le Bihan, D.: MR diffusion tensor spectroscopy and imaging. Biophys. J. 66(1), 259–267 (1994)
Basser, P.J., Mattiello, J., Le Bihan, D.: Estimation of the effective self-diffusion tensor from the NMR spin echo. J. Magn. Reson. 103, 247–254 (1994)
Basu, S., Fletcher, T., Whitaker, R.: Rician noise removal in diffusion tensor MRI. In: Larsen, R., Nielsen, M., Sporring, J. (eds.) Proceedings of the 9th International Conference on Medical Image Computing and Computer-Assisted Intervention—MICCAI 2006, Copenhagen, Denmark, October 1–6, 2006. Lecture Notes in Computer Science, vol. 4190–4191, pp. 117–125. Springer, Berlin (2006)
Bowman, A.W., Azzalini, A.: Applied Smoothing Techniques for Data Analysis: The Kernel Approach with S-Plus Illustrations. Oxford University Press, Oxford (1997)
Carr, H.Y., Purcell, E.M.: Effects of diffusion on free precession in nuclear magnetic resonance experiments. Phys. Rev. 94(3), 630–638 (1954)
Chaudhuri, P., Marron, J.S.: Scale space view of curve estimation. Ann. Stat. 28(2), 408–428 (2000)
Cheng, K., Waggoner, R.A., Tanaka, K.: Human ocular dominance columns as revealed by high-field functional magnetic resonance imaging. Neuron 32(2), 359–374 (2001)
CIBC: Data sets: NCRR Center for Integrative Biomedical Computing (CIBC) data set archive. http://www.sci.utah.edu/cibc/software/login_datasets.html (2008)
Clark, C.A., Le Bihan, D.: Water diffusion compartmentation and anisotropy at high b values in the human brain. Magn. Reson. Med. 44(6), 852–859 (2000)
Descoteaux, M., Angelino, E., Fitzgibbons, S., Deriche, R.: Regularized, fast, and robust analytical Q-ball imaging. Magn. Reson. Med. 58(3), 497–510 (2007)
Ding, Z., Gore, J.C., Anderson, A.W.: Reduction of noise in diffusion tensor images using anisotropic smoothing. Magn. Reson. Med. 53(2), 485–490 (2005)
Duits, R., Franken, E.M.: Left-invariant diffusions on the space of positions and orientations and their application to crossing-preserving smoothing of HARDI images. Int. J. Comput. Vis. 92(3), 231–264 (2011)
Fan, J., Gijbels, I.: Local Polynomial Modelling and Its Applications. Chapman & Hall, London (1996)
Felsberg, M., Forssén, P.-E., Scharr, H.: Channel smoothing: efficient robust smoothing of low-level signal features. IEEE Trans. Pattern Anal. Mach. Intell. 28(2), 209–222 (2006)
Fillard, P., Pennec, X., Arsigny, V., Ayache, N.: Clinical DT-MRI estimation, smoothing, and fiber tracking with log-Euclidean metrics. IEEE Trans. Med. Imaging 26(11) (2007)
Fletcher, P.T.: Statistical variability in nonlinear spaces: application to shape analysis and DT-MRI. PhD thesis, University of North Carolina at Chapel Hill (2004)
Frank, L.R.: Anisotropy in high angular resolution diffusion-weighted MRI. Magn. Reson. Med. 45(6), 935–939 (2001)
Franken, E.M.: Enhancement of crossing elongated structures in images. PhD thesis, Eindhoven University of Technology, Department of Biomedical Engineering, Eindhoven, The Netherlands (2008). http://bmia.bmt.tue.nl/people/efranken/PhDThesisErikFranken.pdf
Friston, K.J., Holmes, A.P., Worsley, K.J., Poline, J.-B., Frith, C.D., Frackowiak, R.S.J.: Statistical parametric maps in functional imaging: a general linear approach. Hum. Brain Mapp. 2, 189–210 (1995)
Gudbjartsson, H., Patz, S.: The Rician distribution of noisy MRI data. Magn. Reson. Med. 34(6), 910–914 (1995)
Hahn, K., Prigarin, S., Heim, S., Hasan, K.: Random noise in diffusion tensor imaging, its destructive impact and some corrections. In: Weickert, J., Hagen, H. (eds.) Visualization and Image Processing of Tensor Fields. Mathematics and Visualization, pp. 1–13. Springer, Berlin (2006)
Heim, S., Fahrmeir, L., Eilers, P.H.C., Marx, B.D.: 3D space-varying coefficient models with application to diffusion tensor imaging. Comput. Stat. Data Anal. 51(12), 6212–6228 (2007)
Jian, B., Vemuri, B.C., Özarslan, E., Carney, P.R., Mareci, T.H.: A novel tensor distribution model for the diffusion-weighted MR signal. NeuroImage 37, 164–176 (2007)
Jones, D.K., Basser, P.J.: “Squashing peanuts and smashing pumpkins”: How noise distorts diffusion-weighted MR data. Magn. Reson. Med. 52(5), 979–993 (2004)
Kleinschmidt, A.: Different analysis solutions for different spatial resolutions? Moving towards a mesoscopic mapping of functional architecture in the human brain. NeuroImage 38(4), 663–665 (2007)
Kriegeskorte, N., Bandettini, P.: Analyzing for information, not activation, to exploit high-resolution fMRI. NeuroImage 38(4), 649–662 (2007)
Lange, N.: Statistical approaches to human brain mapping by functional magnetic resonance imaging. Stat. Med. 15(4), 389–428 (1996)
Lange, N., Zeger, S.L.: Non-linear fourier time series analysis for human brain mapping by functional magnetic resonance imaging. J. R. Stat. Soc., Ser. C, Appl. Stat. 46(1), 1–29 (1997)
Lazar, N.A.: The Statistical Analysis of Functional MRI Data. Statistics for Biology and Health. Springer, Berlin (2008)
Le Bihan, D., Breton, E.: Imagerie de diffusion in vivo par résonance magnétique nucléaire. C. R. Acad. Sci. 301, 1109–1112 (1985)
Lee, J.S.: Digital image enhancement and noise filtering by use of local statistics. IEEE Trans. Pattern Anal. Mach. Intell. 2(2), 165–168 (1980)
Lee, J.H., Chung, M.K., Oakes, T.E., Alexander, A.L.: Anisotropic Gaussian kernel smoothing of DTI data. In: Proceedings of the 13th International Society for Magnetic Resonance in Medicine, ISMRM, Miami, USA, May 7–13, 2005, p. 2253. International Society for Magnetic Resonance in Medicine, Berkeley (2005)
Leow, A.D., Zhu, S., McMahon, K., de Zubicaray, G.I., Meredith, M.J., Wright, M.J., Toga, A.W., Thompson, P.M.: The tensor distribution function. Magn. Reson. Med. 61(1), 205–214 (2009)
Mantini, D., Perrucci, M.G., Del Gratta, C., Romani, G.L., Corbetta, M.: Electrophysiological signatures of resting state networks in the human brain. Proc. Natl. Acad. Sci. 104(32), 13170–13175 (2007)
Merboldt, K.-D., Hanicke, W., Frahm, J.: Self-diffusion NMR imaging using stimulated echoes. J. Magn. Reson. 64(3), 479–486 (1985)
Ogawa, S., Lee, T.M., Kay, A.R., Tank, D.W.: Brain magnetic resonance imaging with contrast dependent on blood oxygenation. Proc. Natl. Acad. Sci. 87(24), 9868–9872 (1990)
Ogawa, S., Tank, D.W., Menon, R., Ellermann, J.M., Kim, S., Merkle, H., Ugurbil, K.: Intrinsic signal changes accompanying sensory stimulation: functional brain mapping with magnetic resonance imaging. Proc. Natl. Acad. Sci. 89(13), 5951–5955 (1992)
Özarslan, E., Mareci, T.H.: Generalized diffusion tensor imaging and analytical relationships between diffusion tensor imaging and high angular resolution imaging. Magn. Reson. Med. 50(5), 955–965 (2003)
Parker, G.J., Schnabel, J.A., Symms, M.R., Werring, D.J., Barker, G.J.: Nonlinear smoothing for reduction of systematic and random errors in diffusion tensor imaging. J. Magn. Reson. Imaging 11(6), 702–710 (2000)
Pennec, X., Fillard, P., Ayache, N.: A Riemannian framework for tensor computing. Int. J. Comput. Vis. 66(1), 41–66 (2006)
Perona, P., Malik, J.: Scale-space and edge detection using anisotropic diffusion. IEEE Trans. Pattern Anal. Mach. Intell. 12(7), 629–639 (1990)
Polzehl, J., Spokoiny, V.: Adaptive weights smoothing with applications to image restoration. J. R. Stat. Soc., Ser. B, Stat. Methodol. 62(2), 335–354 (2000)
Polzehl, J., Spokoiny, V.: Propagation-separation approach for local likelihood estimation. Probab. Theory Relat. Fields 135(3), 335–362 (2006)
Polzehl, J., Spokoiny, V.: Structural adaptive smoothing by propagation-separation methods. In: Chen, C., Härdle, W., Unwin, A. (eds.) Handbook of Data Visualization. Springer Handbooks of Computational Statistics, pp. 471–492. Springer, Berlin (2008)
Polzehl, J., Tabelow, K.: Adaptive smoothing of digital images: the R package adimpro. J. Stat. Softw. 19(1), 1–17 (2007)
Polzehl, J., Tabelow, K.: fMRI: a package for analyzing fMRI data. R News 7(2), 13–17 (2007)
Polzehl, J., Tabelow, K.: Structure adaptive smoothing diffusion tensor imaging data: the R package DTI. Preprint 1382, WIAS (2008)
R Development Core Team: R: A Language and Environment for Statistical Computing. Foundation for Statistical Computing, Vienna (2005). ISBN3-900051-07-0
Simonoff, J.: Smoothing Methods in Statistics. Springer, New York (1996)
Stejskal, E.O., Tanner, J.E.: Spin diffusion measurements: Spin echoes in the presence of a time-dependent field gradient. J. Comput. Phys. 42, 288–292 (1965)
Tabelow, K., Polzehl, J., Voss, H.U., Spokoiny, V.: Analyzing fMRI experiments with structural adaptive smoothing procedures. NeuroImage 33(1), 55–62 (2006)
Tabelow, K., Polzehl, J., Spokoiny, V., Voss, H.U.: Diffusion tensor imaging: structural adaptive smoothing. NeuroImage 39(4), 1763–1773 (2008)
Tabelow, K., Polzehl, J., Ulug, A.M., Dyke, J.P., Heier, L.A., Voss, H.U.: Accurate localization of functional brain activity using structure adaptive smoothing. IEEE Trans. Med. Imaging 27(4), 531–537 (2008)
Tabelow, K., Piëch, V., Polzehl, J., Voss, H.U.: High-resolution fMRI: overcoming the signal-to-noise problem. J. Neurosci. Methods 178(2), 357–365 (2009)
Taylor, D.G., Bushell, M.C.: The spatial mapping of translational diffusion coefficients by the NMR imaging technique. Phys. Med. Biol. 30(4), 345–349 (1985)
Tomasi, C., Manduchi, R.: Bilateral filtering for gray and color images. In: Proceedings of the 6th International Conference on Computer Vision, Bombay, India, January 4–7, 1998, pp. 839–846. IEEE Computer Society, Los Alamitos (1998)
Tuch, D.S.: Q-ball imaging. Magn. Reson. Med. 52, 1358–1372 (2004)
Tuch, D.S., Weisskoff, R.M., Belliveau, J.W., Wedeen, V.J.: High angular resolution diffusion imaging of the human brain. In: Proceedings of the 7th International Society for Magnetic Resonance in Medicine, ISMRM, Pennsylvania, USA, May 24–28, 1999, p. 321. International Society for Magnetic Resonance in Medicine, Berkeley (1999)
Tuch, D.S., Reese, T.G., Wiegell, M.R., Wedeen, V.J.: Diffusion MRI of complex neural architecture. Neuron 40(5), 885–895 (2003)
Voss, H.U., Tabelow, K., Polzehl, J., Tchernichovski, O., Maul, K.K., Salgado-Commissariat, D., Ballon, D., Helekar, S.A.: Functional MRI of the zebra finch brain during song stimulation suggests a lateralized response topography. Proc. Natl. Acad. Sci. 104(25), 10667–10672 (2007)
Wand, M.P., Jones, M.C.: Kernel Smoothing. Chapman & Hall, London (1995)
Weickert, J.A.: Anisotropic Diffusion in Image Processing. ECMI Series. Teubner, Stuttgart (1998)
Westin, C.-F., Maier, S.E., Khidhir, B., Everett, P., Jolesz, F.A., Kikinis, R.: Image processing for diffusion tensor magnetic resonance imaging. In: Taylor, C.J., Colchester, A.C.F. (eds.) Proceedings of the 3rd International Conference on Medical Image Computing and Computer-Assisted Intervention, MICCAI 1999, Cambridge, UK, September 19–22, 1999. Lecture Notes in Computer Science, vol. 1679, pp. 441–452. Springer, Berlin (1999)
Worsley, K.J.: Local maxima and the expected Euler characteristic of excursion sets of χ 2, f and t fields. Adv. Appl. Probab. 26(1), 13–42 (1994)
Worsley, K.J.: Detecting activation in fMRI data. Stat. Methods Med. Res. 12(5), 401–418 (2003)
Worsley, K.J., Friston, K.J.: Analysis of fMRI time series revisited—again. NeuroImage 2(3), 173–181 (1995)
Worsley, K.J., Liao, C., Aston, J.A.D., Petre, V., Duncan, G.H., Morales, F., Evans, A.C.: A general statistical analysis for fMRI data. NeuroImage 15(1), 1–15 (2002)
Yoshiura, T., Mihara, F., Tanaka, A., Ogomori, K., Ohyagi, Y., Taniwaki, T., Yamada, T., Yamasaki, T., Ichimiya, A., Kinukawa, N., Kuwabara, Y., Honda, H.: High b value diffusion-weighted imaging is more sensitive to white matter degeneration in Alzheimer’s disease. NeuroImage 20(1), 413–419 (2003)
Zhang, F., Hancock, E.R.: Riemannian graph diffusion for DT-MRI regularization. In: Larsen, R., Nielsen, M., Sporring, J. (eds.) Proceedings of the 9th International Conference on Medical Image Computing and Computer-Assisted Intervention, MICCAI 2006, Copenhagen, Denmark, October 1–6, 2006. Lecture Notes in Computer Science, vols. 4190–4191, pp. 234–242. Springer, Berlin (2006)
Zhang, F., Hancock, E.R.: Smoothing tensor-valued images using anisotropic geodesic diffusion. In: Yeung, D.-Y., Kwok, J.T., Roli, F., Fred, A., de Ridder, D. (eds.) Proceedings of the Joint IAPR International Workshops on Structural, Syntactic, and Statistical Pattern Recognition, SSPR 2006 and SPR 2006, Hong Kong, China, August 17–19, 2006. Lecture Notes in Computer Science, vol. 4109. Springer, Berlin (2006)
Acknowledgements
This work is supported by the DFG Research Center Matheon. It was made possible in part by software and a dataset from the NIH/NCRR Center for Integrative Biomedical Computing, P41-RR12553. The authors would like to thank A. Anwander at the Max Planck Institute for Human Cognitive and Brain Sciences (Leipzig, Germany) and H.U. Voss at the Citigroup Biomedical Imaging Center, Weill Cornell Medical College for providing diffusion-weighted and functional MR datasets. Furthermore, the authors would like to thank H.U. Voss for numerous intense and helpful discussions on Magnetic Resonance Imaging and related issues.
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Polzehl, J., Tabelow, K. (2012). Structural Adaptive Smoothing: Principles and Applications in Imaging. In: Florack, L., Duits, R., Jongbloed, G., van Lieshout, MC., Davies, L. (eds) Mathematical Methods for Signal and Image Analysis and Representation. Computational Imaging and Vision, vol 41. Springer, London. https://doi.org/10.1007/978-1-4471-2353-8_4
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