Abstract
In recent years, research groups pay even more attention on 3D images, especially in the field of biomedical image processing. Adding another dimension enables to capture the entire object. On the other hand, handling 3D images also requires new algorithms, since not all of them can be modified for higher dimensions intuitively. In this article, we introduce a comparison of various implementations of 3D texture descriptors presented in the literature in recent years. We prepared an unified environment to test all of them under the same conditions. From the results of our tests we came to conclusion, that 3D variants of LBP in the combination with k-NN classifier are a very strong approach with the classification accuracy more than 99% on selected group of 3D biomedical images.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Preview
Unable to display preview. Download preview PDF.
References
Banerjee, J., Moelker, A., Niessen, W.J., van Walsum, T.: 3D LBP-Based Rotationally Invariant Region Description. In: Park, J.-I., Kim, J. (eds.) ACCV 2012 Workshops, Part I. LNCS, vol. 7728, pp. 26–37. Springer, Heidelberg (2013)
Batko, M., Novak, D., Zezula, P.: MESSIF: Metric similarity search implementation framework. In: Thanos, C., Borri, F., Candela, L. (eds.) Digital Libraries: Research and Development. LNCS, vol. 4877, pp. 1–10. Springer, Heidelberg (2007)
Boland, M.V., Murphy, R.F.: A neural network classifier capable of recognizing the patterns of all major subcellular structures in fluorescence microscope images of hela cells. Bioinformatics 17(12), 1213–1223 (2001)
Chen, X., Velliste, M., Weinstein, S., Jarvik, J.W.: Location proteomics: building subcellular location trees from high-resolution 3D fluorescence microscope images of randomly tagged proteins. In: Storage and Retrieval for Image and Video Databases, vol. 4962, pp. 298–306 (2003)
Daněk, O., Matula, P., Maška, M., Kozubek, M.: Smooth Chan-Vese Segmentation via Graph Cuts. Pattern Recogn. Lett. 33(10), 1405–1410 (2012)
Doshi, N.P., Schaefer, G.: A comprehensive benchmark of local binary pattern algorithms for texture retrieval. In: 2012 21st International Conference on Pattern Recognition (ICPR), pp. 2760–2763. IEEE (2012)
Erdos, P., Pach, J.: On a problem of on a problem of L. Fejes Tóth. Discrete Mathematics 30(2), 103–109 (1980)
Fehr, J., Burkhardt, H.: 3D rotation invariant local binary patterns. In: 19th International Conference on Pattern Recognition, ICPR 2008, pp. 1–4 (2008)
Fehr, J.: Local Invariant Features for 3D Image Analysis: Dissertation. Suedwestdeutscher Verlag fuer Hochschulschriften, Germany (2009)
Flusser, J., Kautsky, J., Šroubek, F.: Implicit moment invariants. Int. J. Comput. Vision 86(1), 72–86 (2010)
Fogel, I., Sagi, D.: Gabor filters as texture discriminator. Biological Cybernetics 61(2), 103–113 (1989)
Foggia, P., Percannella, G., Soda, P., Vento, M.: Early experiences in mitotic cells recognition on hep-2 slides. In: IEEE 23rd International Symposium on Computer-Based Medical Systems (CBMS), pp. 38–43 (2010)
Hafiane, A., Seetharaman, G., Zavidovique, B.: Median Binary Pattern for Textures Classification. In: Kamel, M., Campilho, A. (eds.) ICIAR 2007. LNCS, vol. 4633, pp. 387–398. Springer, Heidelberg (2007)
Haralick, R.M., Shanmugam, K., Dinstein, I.: Textural features for image classification. IEEE Trans. on Systems, Man and Cyber. SMC-3(6), 610–621 (1973)
Hu, M.K.: Visual Pattern Recognition by Moment Invariants. IRE Transactions on Information Theory IT-8, 179–187 (1962)
Jaganathan, Y., Vennila, I.: Feature dimension reduction for efficient medical image retrieval system using unified framework. J. Comput. Sci. 9, 1472–1486 (2013)
Kotoulas, L., Andreadis, I.: Image Analysis Using Moments. In: 5th Int. Conf. on Technology and Automation, pp. 360–364 (2005)
Lowe, D.: Object recognition from local scale-invariant features. In: The Proc. of the 7th IEEE Int. Conf. on Computer Vision, vol. 2, pp. 1150–1157 (1999)
Majtner, T., Svoboda, D.: Extension of Tamura Texture Features for 3D Fluorescence Microscopy. In: Second Intern. Conf. on 3D Imaging, Modeling, Processing, Visualization and Transmission (3DIMPVT), pp. 301–307 (2012)
Manjunath, B., Salembier, P., Sikora, T. (eds.): Introduction to MPEG-7: Multimedia Content Description Interface. Wiley & Sons, Inc., New York (2002)
Novotni, M., Klein, R.: Shape retrieval using 3D Zernike descriptors. Computer Aided Design 36, 1047–1062 (2004)
Ojala, T., Pietikainen, M., Harwood, D.: Performance evaluation of texture measures with classification based on kullback discrimination of distributions. In: Proc. of the 12th IAPR Intern. Conf. on Patt. Recog. - Conf. A: Computer Vision & Image Processing, vol. 1, pp. 582–585 (1994)
Ojala, T., Pietikainen, M., Maenpaa, T.: Multiresolution gray-scale and rotation invariant texture classification with local binary patterns. IEEE Trans. on Pattern Analysis and Machine Intelligence 24(7), 971–987 (2002)
Orlov, N., Eckely, D.M., Shamir, L., Goldberg, I.G.: Machine vision for classifying biological and biomedical images. In: Visualization, Imaging, and Image Processing (VIIP 2008), pp. 192–196 (2008)
Paulhac, L., Makris, P., Ramel, J.-Y.: Comparison between 2D and 3D Local Binary Pattern Methods for Characterisation of Three-Dimensional Textures. In: Campilho, A., Kamel, M. (eds.) ICIAR 2008. LNCS, vol. 5112, pp. 670–679. Springer, Heidelberg (2008)
Rellier, G., Descombes, X., Falzon, F., Zerubia, J.: Texture feature analysis using a Gauss-Markov model in hyperspectral image classification. IEEE Transactions on Geoscience and Remote Sensing 42(7), 1543–1551 (2004)
Shamir, L., Orlov, N., Eckley, D.M., Macura, T., Johnston, J.: Wndchrm – an open source utility for biological image analysis (2008)
Stoklasa, R., Majtner, T., Svoboda, D.: Efficient k-NN based HEp-2 cells classifier. Pattern Recognition (2013) (in press)
Svoboda, D., Kozubek, M., Stejskal, S.: Generation of digital phantoms of cell nuclei and simulation of image formation in 3D image cytometry. Cytometry A 75(6), 494–509 (2009)
Tamura, H., Mori, S., Yamawaki, T.: Textural features corresponding to visual perception. IEEE Tran. on Systems, Man and Cyber. 8(6), 460–473 (1978)
Tan, X., Triggs, B.: Enhanced Local Texture Feature Sets for Face Recognition Under Difficult Lighting Conditions. IEEE Transactions on Image Processing 19(6), 1635–1650 (2010)
Teague, M.R.: Image analysis via the general theory of moments. Journal of the Optical Society of America (1917-1983) 70, 920–930 (1980)
Tesar, L., Smutek, D., Shimizu, A., Kobatake, H.: 3D extension of Haralick texture features for medical image analysis. In: Proceedings of the Fourth IASTED International Conference on Signal Processing, Pattern Recognition, and Applications, SPPRA 2007, Anaheim, CA, USA, pp. 350–355. ACTA Press (2007)
Zhao, G., Pietikäinen, M.: Dynamic Texture Recognition Using Volume Local Binary Patterns. In: Vidal, R., Heyden, A., Ma, Y. (eds.) WDV 2005/2006. LNCS, vol. 4358, pp. 165–177. Springer, Heidelberg (2006)
Zhao, G., Pietikainen, M.: Dynamic Texture Recognition Using Local Binary Patterns with an Application to Facial Expressions. IEEE Trans. Pattern Anal. Mach. Intell. 29(6), 915–928 (2007)
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2014 Springer International Publishing Switzerland
About this paper
Cite this paper
Majtner, T., Svoboda, D. (2014). Comparison of 3D Texture-Based Image Descriptors in Fluorescence Microscopy. In: Barneva, R.P., Brimkov, V.E., Šlapal, J. (eds) Combinatorial Image Analysis. IWCIA 2014. Lecture Notes in Computer Science, vol 8466. Springer, Cham. https://doi.org/10.1007/978-3-319-07148-0_17
Download citation
DOI: https://doi.org/10.1007/978-3-319-07148-0_17
Publisher Name: Springer, Cham
Print ISBN: 978-3-319-07147-3
Online ISBN: 978-3-319-07148-0
eBook Packages: Computer ScienceComputer Science (R0)