Have a personal or library account? Click to login
Automatic bird song and syllable segmentation with an open-source deep-learning object detection method – a case study in the Collared Flycatcher (Ficedula albicollis) Cover

Automatic bird song and syllable segmentation with an open-source deep-learning object detection method – a case study in the Collared Flycatcher (Ficedula albicollis)

Open Access
|Dec 2019

References

  1. Bioacoustics Research Program 2014. Raven Pro: Interactive Sound Analysis Software (Version 1.5) [Computer software]. – Ithaca, NY: The Cornell Lab of Ornithology Available from http://www.birds.cornell.edu/raven.
  2. Borker, A. L., Halbert, P., McKown, M. W., Tershy, B. R. & Croll, D. A. 2015. A comparison of automated and traditional monitoring techniques for marbled murrelets using passive acoustic sensors. – Wildlife Society Bulletin 39: 813–818. DOI: 10.1002/wsb.60810.1002/wsb.608
  3. Catchpole, C. K., Slater, P. J. B. 2008. Bird song: biological themes and variations, 2nd ed. – Cambridge University Press, Cambridge10.1017/CBO9780511754791
  4. Garamszegi, L. Zs., Eens, M. & Török, J. 2008. Birds Reveal their Personality when Singing. – PLoS One 3(7). DOI: 10.1371/journal.pone.000264710.1371/journal.pone.0002647244145418612388
  5. Garamszegi, L. Zs., Török, J., Hegyi, G., Szöllõsi, E., Rosivall, B. & Eens, M. 2007. Age-dependent expression of song in the Collared Flycatcher, Ficedula albicollis. – Ethology 113: 246–256. DOI: 10.1111/j.1439-0310.2007.01337.x10.1111/j.1439-0310.2007.01337.x
  6. Garamszegi, L. Zs., Zagalska-Neubauer, M., Canal, D., Blazi, Gy., Laczi, M., Nagy, G., Szőllősi, E., Vaskuti, É. Török, J. & Zsebők, S. 2018. MHC-mediated sexual selection on birdsong: Generic polymorphism, particular alleles and acoustic signals. – Molecular Ecology 27: 2620–2633. DOI: 10.1111/mec.1470310.1111/mec.1470329693314
  7. Garamszegi, L. Zs., Zsebők, S. & Török, J. 2012. The relationship between syllable repertoire similarity and pairing success in a passerine bird species with complex song. – Journal of Theoretical Biology 295: 68–76. DOI: 10.1016/j.jtbi.2011.11.01110.1016/j.jtbi.2011.11.01122123372
  8. Haavie, J., Borge, T., Bures, S., Garamszegi, L. Zs., Lampe, H. M., Moreno, J., Qvarnström, A., Török, J. & Sætre, G. P. 2004. Flycatcher song in allopatry and sympatry – Convergence, divergence and reinforcement. – Journal of Evolutionary Biology 17: 227–237. DOI: 10.1111/j.1420-9101.2003.00682.x10.1111/j.1420-9101.2003.00682.x15009256
  9. Hafner, S. D. & Katz, J. 2017. {monitoR}: Acoustic template detection in R. Retrieved from http://www.uvm.edu/rsenr/vtcfwru/R/?Page=monitoR/monitoR.htm
  10. Hopp, S. L., Owren, M. J. & Evans, C. S. 1998. Animal acoustic communication: sound analysis and research methods. – Springer-Verlag Berlin Heidelberg10.1007/978-3-642-76220-8
  11. Lachlan, R. F., Ratmann, O. & Nowicki, S. 2018. Cultural conformity generates extremely stable traditions in bird song. – Nature Communications 9: 2417. DOI: 10.1038/s41467-018-04728-110.1038/s41467-018-04728-1601040929925831
  12. Laiolo, P. 2010. The emerging significance of bioacoustics in animal species conservation. – Biological Conservation 143: 1635–1645. DOI: 10.1016/j.biocon.2010.03.02510.1016/j.biocon.2010.03.025
  13. Mac Aodha, O., Gibb, R., Barlow, K. E., Browning, E., Firman, M., Freeman, R., Harder, B., Kinsey, L., Mead, G. R., Newson, S. E., Pandourski, I., Parsons, S., Russ, J., Szodoray-Paradi, A., Szodoray-Paradi, F., Tilova, E., Girolami, M., Brostow, G. & Jones, K. E. 2018. Bat detective-Deep learning tools for bat acoustic signal detection. – PLoS Computational Biology 14: 1–19. DOI: 10.1371/journal.pcbi.100599510.1371/journal.pcbi.1005995584316729518076
  14. Priyadarshani, N., Marsland, S. & Castro, I. 2018. Automated birdsong recognition in complex acoustic environments: a review. – Journal of Avian Biology 49(5): 1–27. DOI: 10.1111/jav.0144710.1111/jav.01447
  15. R Core Team 2018. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria – Available online at https://www.R-project.org/
  16. Rahman, M. A. & Wang, Y. 2016. Optimizing intersection-over-union in deep neural networks for image segmentation. – Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), 10072 LNCS: 234–244. DOI: 10.1007/978-3-319-50835-1_2210.1007/978-3-319-50835-1_22
  17. Redmon, J., Divvala, S., Girshick, R. & Farhadi, A. 2016. You Only Look Once: Unified, Real-Time Object Detection. Retrieved from https://arxiv.org/abs/1506.02640v510.1109/CVPR.2016.91
  18. Redmon, J. & Farhadi, A. 2018. YOLOv3: An Incremental Improvement. – Retrieved from http://arxiv.org/abs/1804.02767
  19. Stowell, D., Petrusková, T., Šálek, M. & Linhart, P. 2018. Automatic acoustic identification of individual animals: Improving generalisation across species and recording conditions. – Retrieved from http://arxiv.org/abs/1810.09273
  20. Stowell, D., Wood, M. D., Pamuła, H., Stylianou, Y. & Glotin, H. 2019. Automatic acoustic detection of birds through deep learning: The first Bird Audio Detection challenge. – Methods in Ecology and Evolution 10: 368–380. DOI: 10.1111/2041-210X.1310310.1111/2041-210X.13103
  21. Sueur, J., Aubin, T. & Simonis. C. 2008. Seewave, a Free Modular Tool for Sound Analysis and Synthesis. Bio-acoustics The International Journal of Animal Sound and its Recording 18:213–226. DOI: 10.1080/09524622. 2008.975360010.1080/09524622.2008.9753600
  22. Tchernichovski, O., Nottebohm, F., Ho, C. E., Pesaran, B. & Mitra, P. P. 2000. A procedure for an automated measurement of song similarity. – Animal Behaviour 59: 1167–1176. DOI: 10.1006/anbe.1999.141610.1006/anbe.1999.141610877896
  23. Vellema, M., Diales Rocha, M., Bascones, S., Zsebők, S., Dreier, J., Leitner, S., Van der Linden, A., Brewer, J. & Gahr, M. 2019. Accelerated redevelopment of vocal skills is preceded by lasting reorganization of the song motor circuitry. – Elife 8: 1–46. DOI: 10.7554/elife.4319410.7554/elife.43194657052631099755
  24. Zachar, G., Tóth, A. S., Gerecsei, L. I., Zsebők, S., Ádám, Á. & Csillag, A. 2019. Valproate exposure in ovo attenuates the acquisition of social preferences of young post-hatch Domestic Chicks. – Frontiers in Physiology 10: 881. DOI: 10.3389/fphys.2019.0088110.3389/fphys.2019.00881664651731379596
  25. Zsebők, S., Blázi, G., Laczi, M., Nagy, G., Vaskuti, É. & Garamszegi, L. Zs. 2018a “Ficedula”: an open-source MATLAB toolbox for cutting, segmenting and computer-aided clustering of bird song. – Journal of Ornithology 159: 1105–1111. DOI: 10.1007/s10336-018-1581-910.1007/s10336-018-1581-9
  26. Zsebők, S., Herczeg, G., Blázi, G., Laczi, M., Nagy, G., Török, J. & Garamszegi, L. Zs. 2018b Minimum spanning tree as a new, robust repertoire size comparison method: simulation and test on birdsong. – Behavioral Ecology and Sociobiology 72: 48. DOI: 10.1007/s00265-018-2467-910.1007/s00265-018-2467-9
  27. Zsebők, S., Herczeg, G., Blázi, G., Laczi, M., Nagy, G., Szász, E., Markó, G., Török, J. & Garamszegi, L. Zs. 2017. Short- and long-term repeatability and pseudo-repeatability of bird song: sensitivity of signals to varying environments. – Behavioral Ecology and Sociobiology 71: 154. DOI: 10.1007/s00265-017-2379-010.1007/s00265-017-2379-0
DOI: https://doi.org/10.2478/orhu-2019-0015 | Journal eISSN: 2061-9588 | Journal ISSN: 1215-1610
Language: English
Page range: 59 - 66
Submitted on: Sep 12, 2019
|
Accepted on: Oct 21, 2019
|
Published on: Dec 16, 2019
Published by: MME/BirdLife Hungary
In partnership with: Paradigm Publishing Services
Publication frequency: 2 issues per year

© 2019 Sándor Zsebők, Máté Ferenc Nagy-Egri, Gergely Gábor Barnaföldi, Miklós Laczi, Gergely Nagy, Éva Vaskuti, László Zsolt Garamszegi, published by MME/BirdLife Hungary
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 3.0 License.