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Localisation of Pollen Grains in Digitised Real Daily Airborne Samples

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Artificial Computation in Biology and Medicine (IWINAC 2015)

Abstract

Content analysis of pollen grains in the atmosphere is an important task for preventing allergy symptoms, studying crop production or detecting environmental changes. In the last decades, a lot of palynological labs have been created to collect, prepare and analyse airborne samples. Nowadays, this task is done manually with optical microscopes, requires trained experts and is time-consuming. The development of new computer vision systems and the low price of storage systems have improved the solutions towards an automated palynology. Some recognition problems have been solved with better quality images and other with 3D images, but localisation in real airborne samples, with debris, clumped and grouped pollen grains needs to be improved in order to achieve an automatic system useful for biological labs. In this manuscript, we analyse the advances achieved in the last years and explain a new low-cost methodology, that imitates the human expert labour using computational algorithms based on image characteristics and domain knowledge to detect pollen grains. The current results are promising (81.92% of recall and 18.5% of precision) but not enough to develop an automated palynology system.

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References

  1. Allen, G.: An Automated Pollen Recognition System. PhD thesis, Massey University (2006)

    Google Scholar 

  2. Bonton, P., Boucher, A., Thonnat, M., Tomczak, R., Hidalgo, P.J., Belmonte, J., Galán, C.: Colour image in 2d and 3d microscopy for the automation of pollen rate measurement. Image Anal. Stereol. 1, 332–527 (2001)

    Google Scholar 

  3. Boucher, A., Hidalgo, P.J., Thonnat, M., Belmonte, J., Galan, C., Bonton, P., Tomczak, R.: Development of a semi-automatic system for pollen recognition. Aerobiologia 18, 195–201 (2002)

    Article  Google Scholar 

  4. Carvalho, E., Sindt, C., Verdier, A., Galan, C., O’Donoghue, L., Parks, S., Thibaudon, M.: Performance of the coriolis air sampler, a high-volume aerosol-collection system for quantification of airborne spores and pollen grains. Springer Science+Business Media (2008)

    Google Scholar 

  5. Costa, C.M., Yang, S.: Counting pollen grains using readily available, free image processing and analysis software. Annals of Botany (2009)

    Google Scholar 

  6. Flenley, J.: The problem of pollen recognition. In: Problems in Picture Interpretation, pp. 141–145 (1968)

    Google Scholar 

  7. Galán, C., García, H., Cariñanos, P., Alcazar, P., Domínguez, E.: Manual de calidad y gestion de la Red Española de Aerobiología, REA (2007)

    Google Scholar 

  8. Giesecke, T., Fontana, S.L., Knaap, W.O., Pardoe, H.S., Pidek, I.A.: From early pollen trapping experiments to the pollen monitoring programme. Veget. Hist. Archaeobot. 19, 247–258 (2010)

    Article  Google Scholar 

  9. Hirst, J.M.: An automatic volumetric spore trap. Ann. Appl. Biol. 39, 257–265 (1952)

    Article  Google Scholar 

  10. Holt, K., Allen, G., Hodgson, R., Marsland, S., Flenley, J.: Progress towards an automated trainable pollen location and classifier system for use in the palynology laboratory. Review of Peleobotany and Palynology 167, 175–183 (2011)

    Article  Google Scholar 

  11. Landsmeer, S.H., Hendriks, E.A., Weger, L.A., Reiber, J.C., Stoel, B.C.: Detection of pollen grains in multifocal optical microscopy images of air samples. Microscopy Research and Technique 72, 424–430 (2009)

    Article  Google Scholar 

  12. Muradil, M., Okamoto, Y., Yonekura, S., Chazono, H., Hisamitsu, M., Horiguchi, S., Hanazawa, T., Takahashi, Y., Yokota, K., Okumura, S.: Reevaluation of pollen quantitation by an automatic pollen counter. Allergy and Asthma Proceedings 31(5), 422–427(6) (2010)

    Google Scholar 

  13. Nguyen, N.R., Donalson-Matasci, M., Shin, M.C.: Improving pollen classification with less training effort. In: IEEE Workshop on Applications of Computer Vision, pp. 421–426 (2013)

    Google Scholar 

  14. Ranzato, M., Taylor, P.E., House, J.M., Flagan, R.C., LeCun, Y., Perona, P.: Automatic recognition of biological particles in microscopic images. Pattern Recognition Letters 28(1), 31–39 (2007)

    Article  Google Scholar 

  15. Rodriguez-Damian, M., Cernadas, E., Formella, A., Fernandez-Delgado, M., De Sa-Otero, P.: Automatic detection and classification of grains of pollen based on shape and texture. IEEE Transactions on Systems, Man, and Cybernetics, Part C: Applications and Reviews 36(4), 531–542 (2006)

    Article  Google Scholar 

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Correspondence to Estela Díaz-López .

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Díaz-López, E. et al. (2015). Localisation of Pollen Grains in Digitised Real Daily Airborne Samples. In: Ferrández Vicente, J., Álvarez-Sánchez, J., de la Paz López, F., Toledo-Moreo, F., Adeli, H. (eds) Artificial Computation in Biology and Medicine. IWINAC 2015. Lecture Notes in Computer Science(), vol 9107. Springer, Cham. https://doi.org/10.1007/978-3-319-18914-7_37

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  • DOI: https://doi.org/10.1007/978-3-319-18914-7_37

  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-319-18913-0

  • Online ISBN: 978-3-319-18914-7

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