skip to main content
10.1145/3293353.3293380acmotherconferencesArticle/Chapter ViewAbstractPublication PagesicvgipConference Proceedingsconference-collections
research-article

An automated tassel detection and trait extraction pipeline to support high-throughput field imaging of maize

Published:03 May 2020Publication History

ABSTRACT

Field-based high-throughput imaging of agricultural crops has gained prominence for its application to plant breeding research as well as precision agriculture. The scale of data generated requires automated methods to extract plant traits of importance from the image data. However, the variations in the imaging, lighting and environmental conditions make this a challenging task. In this work, we provide an image analysis pipeline developed on field-based image data of maize. The pipeline broadly consists of three sequential steps: automated tassel detection using Faster Region based Convolutional Neural Network, pixel level localization of the tassel structure using color information and adaptive thresholding, and tassel length computation for straight as well as curved tassels by combining piecewise Hough lines. Our results at different stages demonstrate the effectiveness of our overall pipeline.

References

  1. Singh Arti, Ganapathysubramanian Baskar, Singh Asheesh Kumar, and Sarkar Soumik. 2015. Machine Learning for High-Throughput Stress Phenotyping in Plants. Trends in Plant Science 21 (2015). https://doi.org/10.1016/j.tplants.2015.10.015Google ScholarGoogle Scholar
  2. Yann Chéné, David Rousseau, Philippe Lucidarme, Jessica Bertheloot, Valérie Caffier, Philippe Morel, Étienne Belin, and François Chapeau-Blondeau. 2012. On the use of depth camera for 3D phenotyping of entire plants. Computers and Electronics in Agriculture 82 (2012), 122--127. https://doi.org/10.1016/j.compag.2011.12.007Google ScholarGoogle ScholarDigital LibraryDigital Library
  3. S. D. Choudhury, S. Goswami, S. Bashyam, T. Awada, and A. Samal. 2017. Automated Stem Angle Determination for Temporal Plant Phenotyping Analysis. In 2017 IEEE International Conference on Computer Vision Workshops (ICCVW). https://doi.org/10.1109/ICCVW.2017.237Google ScholarGoogle Scholar
  4. Noah Fahlgren, Malia A Gehan, and Ivan Baxter. 2015. Lights, camera, action: high-throughput plant phenotyping is ready for a close-up. Current Opinion in Plant Biology 24 (2015), 93--99. https://doi.org/10.1016/j.pbi.2015.02.006Google ScholarGoogle ScholarCross RefCross Ref
  5. Joseph L. Gage, Nathan D. Miller, Edgar P. Spalding, Shawn M. Kaeppler, and Natalia de Leon. 2017. TIPS: a system for automated image-based phenotyping of maize tassels. Plant Methods 13, 1 (2017). https://doi.org/10.1186/s13007-017-0172-8Google ScholarGoogle Scholar
  6. Ross Girshick. 2015. Fast R-CNN. In Proceedings of the International Conference on Computer Vision (ICCV).Google ScholarGoogle Scholar
  7. Ross B. Girshick, Jeff Donahue, Trevor Darrell, and Jitendra Malik. 2013. Rich feature hierarchies for accurate object detection and semantic segmentation. CoRR abs/1311.2524 (2013). http://arxiv.org/abs/1311.2524Google ScholarGoogle Scholar
  8. Wei Guo, Tokihiro Fukatsu, and Seishi Ninomiya. 2015. Automated characterization of flowering dynamics in rice using field-acquired time-series RGB images. Plant Methods 11 (2015). https://doi.org/10.1186/s13007-015-0047-9Google ScholarGoogle Scholar
  9. Lambert R. J. and R. R. Johnson. 1978. Leaf Angle, Tassel Morphology, and the Performance of Maize Hybrids1. Crop Sci. 18 (1978), 499--502. https://doi.org/10.2135/cropsci1978.0011183X001800030037xGoogle ScholarGoogle ScholarCross RefCross Ref
  10. Alex Krizhevsky, Ilya Sutskever, and Geoffrey E Hinton. 2012. ImageNet Classification with Deep Convolutional Neural Networks. In Advances in Neural Information Processing Systems 25, F. Pereira, C. J. C. Burges, L. Bottou, and K. Q. Weinberger (Eds.). Curran Associates, Inc., 1097--1105. http://papers.nips.cc/paper/4824- imagenet- classification-with-deep-convolutional-neural-networks.pdfGoogle ScholarGoogle ScholarDigital LibraryDigital Library
  11. Ferhat Kurtulmuş and İsmail Kavdir. 2014. Detecting Corn Tassels Using Computer Vision and Support Vector Machines. Expert Syst. Appl. 41, 16 (Nov. 2014), 7390--7397. https://doi.org/10.1016/j.eswa.2014.06.013Google ScholarGoogle ScholarDigital LibraryDigital Library
  12. N Lee, Y S Chung, S Srinivasan, P Schnable, and B Ganapathysubramanian. 2016. Fast, automated identification of tassels: Bag-of-features, graph algorithms and high throughput computing. International Conference on Knowledge Discovery and Data Mining, The ACM SIGKDD Conference Series (San Francisco, CA). (2016).Google ScholarGoogle Scholar
  13. Lei Li, Qin Zhang, and Danfeng Huang. 2014. A Review of Imaging Techniques for Plant Phenotyping. Sensors 14 (2014). https://doi.org/10.3390/s141120078Google ScholarGoogle Scholar
  14. Wei Liu, Dragomir Anguelov, Dumitru Erhan, Christian Szegedy, Scott E. Reed, Cheng-Yang Fu, and Alexander C. Berg. 2015. SSD: Single Shot MultiBox Detector. CoRR abs/1512.02325 (2015). http://arxiv.org/abs/1512.02325Google ScholarGoogle Scholar
  15. Hao Lu, Zhiguo Cao, Yang Xiao, Zhiwen Fang, and Yanjun Zhu. 2017. Towards fine-grained maize tassel flowering status recognition: Dataset, theory and practice. Applied Soft Computing 56 (2017), 34--45. https://doi.org/10.1016/j.asoc.2017.02.026Google ScholarGoogle ScholarDigital LibraryDigital Library
  16. Hao Lu, Zhiguo Cao, Yang Xiao, Bohan Zhuang, and Chunhua Shen. 2017. TasselNet: counting maize tassels in the wild via local counts regression network. Plant Methods 13, 1 (01 Nov 2017), 79. https://doi.org/10.1186/s13007-017-0224-0Google ScholarGoogle Scholar
  17. Sharada P. Mohanty, David P. Hughes, and Marcel Salathé. 2016. Using Deep Learning for Image-Based Plant Disease Detection. Frontiers in Plant Science 7 (2016), 1419. https://doi.org/10.3389/fpls.2016.01419Google ScholarGoogle ScholarCross RefCross Ref
  18. Robert L. Nielsen. 2016. Tassel Emergence and Pollen Shed. (2016). https://www.agry.purdue.edu/ext/corn/news/timeless/Tassels.htmlGoogle ScholarGoogle Scholar
  19. M. P. Pound, J. A. Atkinson, D. M. Wells, T. P. Pridmore, and A. P. French. 2017. Deep Learning for Multi-task Plant Phenotyping. In 2017 IEEE International Conference on Computer Vision Workshops (ICCVW). https://doi.org/10.1109/ICCVW.2017.241Google ScholarGoogle Scholar
  20. Shaoqing Ren, Kaiming He, Ross Girshick, and Jian Sun. 2015. Faster R-CNN: Towards Real-Time Object Detection with Region Proposal Networks. In Advances in Neural Information Processing Systems 28. Curran Associates, Inc. http://papers.nips.cc/paper/5638-faster-r-cnn-towards-real-time-object-detection-with-region-proposal-networks.pdfGoogle ScholarGoogle Scholar
  21. Shaoqing Ren, Kaiming He, Ross B. Girshick, and Jian Sun. 2015. Faster R-CNN: Towards Real-Time Object Detection with Region Proposal Networks. CoRR abs/1506.01497 (2015). arXiv:1506.01497 http://arxiv.org/abs/1506.01497Google ScholarGoogle Scholar
  22. D. V. S. X. D. Silva, W. A. C. Fernando, H. Kodikaraarachchi, S. T. Worrall, and A. M. Kondoz. 2010. Adaptive sharpening of depth maps for 3D-TV. Electronics Letters 46, 23 (November 2010), 1546--1548. https://doi.org/10.1049/el.2010.2320Google ScholarGoogle ScholarCross RefCross Ref
  23. Niko Sünderhauf, Christopher McCool, Ben Upcroft, and Tristan Perez. 2014. Fine-grained plant classification using convolutional neural networks for feature extraction. In CLEF 2014 Conference and Labs of the Evaluation Forum. CEUR Workshop Proceedings, 756--762. https://eprints.qut.edu.au/82381/Google ScholarGoogle Scholar
  24. Achimand Walter, Frank Liebisch, and Andreas Hund. 2015. Plant phenotyping: from bean weighing to image analysis. Plant Methods (2015). https://doi.org/10.1186/s13007-015-0056-8Google ScholarGoogle Scholar

Index Terms

  1. An automated tassel detection and trait extraction pipeline to support high-throughput field imaging of maize

    Recommendations

    Comments

    Login options

    Check if you have access through your login credentials or your institution to get full access on this article.

    Sign in
    • Published in

      cover image ACM Other conferences
      ICVGIP '18: Proceedings of the 11th Indian Conference on Computer Vision, Graphics and Image Processing
      December 2018
      659 pages
      ISBN:9781450366151
      DOI:10.1145/3293353

      Copyright © 2018 ACM

      Permission to make digital or hard copies of all or part of this work for personal or classroom use is granted without fee provided that copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. Copyrights for components of this work owned by others than ACM must be honored. Abstracting with credit is permitted. To copy otherwise, or republish, to post on servers or to redistribute to lists, requires prior specific permission and/or a fee. Request permissions from [email protected]

      Publisher

      Association for Computing Machinery

      New York, NY, United States

      Publication History

      • Published: 3 May 2020

      Permissions

      Request permissions about this article.

      Request Permissions

      Check for updates

      Qualifiers

      • research-article
      • Research
      • Refereed limited

      Acceptance Rates

      Overall Acceptance Rate95of286submissions,33%

    PDF Format

    View or Download as a PDF file.

    PDF

    eReader

    View online with eReader.

    eReader