Publications

As of October 2017, the Automated Sorghum Phenotyping and Trait Development Platform project has generated 6 invention disclosures to ARPA-E and 2 U.S. Patent and Trademark Office (PTO) patent applications. The Automated Sorghum Phenotyping and Trait Development Platform project has also published the scientific underpinnings of this technology extensively in the open literature.  A list of publications is provided below:

  1. Chen, Y., Ribera, J., Boomsma, C., Delp, E.J. (2017, October). Locating Crop Plant Centers From UAV-Based RGB Imagery. Paper presented at the IEEE International Conference on Computer Vision, Workshop on Computer Vision Problems in Plant Phenotyping, Venice, Italy.
  2. Ribera, J., Chen, Y., Boomsma, C., Delp, E.J. (2017, November). Counting plants using deep learning. Paper presented at the IEEE Global Conference on Signal and Information Processing, Montreal, Canada.
  3. Chen, Y., Ribera, J., Boomsma, C., Delp, E.J. (2017, September). Plant leaf segmentation for estimating phenotypic traits. Paper presented at the IEEE International Conference on Image Processing, Beijing, China.
  4. Yu, M., Thompson, A.M., Ramamurthy, K., Yang, E., Lozano, A.C. (2017, August). Multitask Learning using Task Clustering with Applications to Predictive Modeling and GWAS of Plant Varieties. Paper presented at the KDD Workshops – Data Science for Intelligent Food, Energy, and Water, Halifax, Nova Scotia, Canada.
  5. Zhang, Z., Masjedi, A., Zhao, J. Crawford, M. (2017, July). Prediction of Sorghum Biomass Based on Image-Based Features from a Time Series of UAV Images. Paper presented at 2017 IEEE Geoscience and Remote Sensing Symposium. Worth, TX.
  6. Tuinstra, M., Boomsma, C., Ribera, J., Chen, Y., He., F., Xiong, W., Zhang, Z., Thompson, A.M., Ramamurthy, N., K., Lozano, A.C., Abe, N., Habib, A., Delp, E.J., Biehl, L., Leasure, M., Cherkauer, K., Weil, C., Crawford, M. (2017, June). High-throughput Phenotyping of Crop Plants in Field Trials Using RGB, LiDAR, and Hyperspectral Imaging. Paper presented at the meeting of CROPS 2017, Huntsville, AL.
  7. Habib, A. (2017, August). Geomatics Engineering as an Enabling Field for Interdisciplinary Collaboration. Paper presented at the meeting of the National Authority for Remote Sensing and Space Science (NARSS), Cairo, Egypt.
  8. Lin, Y., Ravi, R., Shamseldin, T., Elbahnasawy, M., Bullock, D., and Habib, A. (2017, May). Comparative Analysis of Potential Calibration Alternatives for a Multi-Unit LiDAR System.Paper presented at the 10th International Conference on Mobile Mapping Technology, Cairo, Egypt.
  9. He, F., Xiong, W., and Habib, A. (2017, May). A Structure-from-Motion Approach Using UAV-based Imagery for Precision Agriculture Applications.Paper presented at the 10th International Conference on Mobile Mapping Technology, Cairo, Egypt.
  10. He, F., Elbahnasawy, M., Shamseldin, T., Xiong, W., and Habib, A. (2017, May). Comparative Analysis of Image and LiDAR-Based Elevation Maps from a UAV Platform for Agriculture Management. Paper presented at the 10th International Conference on Mobile Mapping Technology, Cairo, Egypt.
  11. Thompson, A.M., Yu, M., Ramamurthy, K.N., Lozano, A.C., Yang, E., Crawford, M., Habib, A., Delp, E.J., Weil, C., Tuinstra, M. (2017, March). Assessing the Promise of Automated Plant Phenotyping for Comprehensive Genetic Mapping: A Unified Framework of Joint Model Clustering and Estimation for Predictive Modeling and GWAS of Plant Varieties.Paper presented at the 11th Annual Machine Learning Symposium, New York, NY.
  12. Boomsma, C., Ribera, J., Chen, Y., He, F., Thompson, A.M., Habib, A., Delp, E.J., Leasure, M., Olsen, P., Crawford, M., Tuinstra, M. (2017, March). Individual Plant Phenotyping in Sorghum and Maize: Theory, Early Results, and Multi-crop Applications. Presentation at the 53rd Annual Illinois Corn Breeders’ School, Champaign, IL.
  13. Zhu, Y., Crawford, M., Cherkauer, K. (2017, February). Orthomosaic Multispectral Imagery from UAS and Sorghum Genotypes Classification. Paper presented at thePurdue University ABE Graduate Industrial Research Symposium, West Lafayette, IN.
  14. Chitnis, U., Ramamurthy, K. (2017, February). An Efficient, Scalable Data Store for Automated High Throughput Phenotyping. Paper presented atPhenome 2017, Tucson, AZ.
  15. Ramamurthy, K.N., Olsen, P., Chitnis, U., Thompson, A.M., Abe, N., Zhang, Z., Crawford, M., He, F., Habib, A., Tuinstra, M. (February 2017). A Sorghum Panicle Annotation and Counting Tool. Paper presented at Phenome 2017, Tucson, AZ.
  16. Habib, A. (2017, February). Geomatics Engineering as an Enabling Technology for Interdisciplinary Collaboration: Background and Forward Outlook. Seminar presented at thePurdue University Geomatics Engineering Seminar, West Lafayette, IN.
  17. Habib, A. (2017, January 19). UAV-Based Mobile Mapping Systems: Status and Future Trends. Continuing Education Seminar presented at the meeting of the Indiana Society of Professional Land Surveyors’ (ISPLS) 65th Annual Convention, Indianapolis, IN.
  18. He, F., Habib, A., (2016). Automated Relative Orientation of UAV-Based Imagery in the Presence of Prior Information for the Flight Trajectory.Photogrammetric Engineering and Remote Sensing, 82, 879-891. DOI:10.14358/PERS.82.11.879
  19. Boomsma, C., Ribera, J., Chen, Y., He, F., Thompson, A.M., Habib, A., Delp, E.J., Leasure, M., Crawford, M., Tuinstra, M. (2016, October). Calculating Intra-Row Plant Spacing Metrics from UAV Imagery. Paper presented at the Annual Meeting of the American Society of Agronomy (ASA), Crop Science Society of America (CSSA), Soil Science Society of America (SSSA), Phoenix, AZ.
  20. Crawford, M., (2016, October). Multi-Modality Remote Sensing and Data Analysis for High-throughput Phenotyping. Seminar presented at the meeting of the University Industry Consortium, Indianapolis, IN.
  21. Tuinstra, M., Boomsma, C., Ribera, J., Chen, Y., He, F., Xiong, W., Zhang, Z., Thompson, A.M., Ramamurthy, K.N., Lozano, A.C., Abe, N., Habib, A., Delp, E.J., Biehl, L., Leasure, M., Cherkauer, K., Weil, C., Crawford, M. (2016, December). High-throughput Field Phenotyping
    of Sorghum: Theory, Results, Challenges, and Multi-Crop Applications
    . Paper presented at the meeting of the American Seed Trade Association CSS 2016 & Seed Expo, Chicago, IL.
  22. Tuinstra, M., Boomsma, C., Ribera, J., Chen, Y., He, F., Xiong, W., Zhang, Z., Thompson, A.M., Ramamurthy, K.N., Lozano, A.C., Abe, N., Habib, A., Delp, E.J., Biehl, L., Leasure, M., Cherkauer, K., Weil, C., Crawford, M. (2016, December). High-throughput Field Phenotyping of Sorghum: Theory, Results, Challenges, and Multi-Crop Applications. Paper presented at the meeting of the American Seed Trade Association Crop Science Symposium (CSS) 2016 & Seed Expo, Chicago, IL.
  23. Crawford, M. (2016, December). Multi-modality Remote Sensing and Data Analysis for High-throughput Phenotyping. Paper presented at the 4th meeting of the International Plant Phenotyping Network (IPPN) Symposium, El Batan, Texcoco, México.
  24. Boomsma, C., Ribera, J., Chen, Y., He, F., Thompson, A.M., Habib, A., Delp, E.J., Leasure, M., Crawford, M., Tuinstra, M. (2016, October). Individual Plant Phenotyping: Theory, Early Results, and Applications. Paper presented at the Annual Meeting of the American Society of Agronomy (ASA), Crop Science Society of America (CSSA), Soil Science Society of America (SSSA), Phoenix, AZ.
  25. Thompson, A.M., Ramamurthy, K.N., Zhang, Z., He, F., Crawford, M., Habib, A., Weil, C., Tuinstra, M. (2016, October). Estimating End Biomass in Sorghum Using Aerial and Ground-Based Phenotypes. Paper presented at the Annual Meeting of the American Society of Agronomy (ASA), Crop Science Society of America (CSSA), Soil Science Society of America (SSSA), Phoenix, AZ.
  26. Habib, A., Cherkauer, K. (2016, November). Unmanned Airborne Systems for Agricultural Management. Panel speakers at the annual meeting of Purdue Geographic Information Systems (GIS)Day 2016, West Lafayette, IN.
  27. Biehl, L. (2016, November). GeoSpatial Tools and Data Provided by IT@P Research Computing. Seminar speaker at the annual meeting of Purdue Geographic Information Systems (GIS)Day 2016, West Lafayette, IN.
  28. Habib, A., Han, Y., Xiong, W., He, F., Zhang, Z., Crawford, M. (2016) Automated Ortho-Rectification of UAV-Based Hyperspectral Data over an Agricultural Field Using Frame RGB Imagery.Remote Sensing, 8(10). 796. DOI:10.3390/rs8100796
  29. Flatt, E., Leasure, M. (2016, September). Operational Aspects of UAS Data Collection.Seminar given at the meeting of the American Society for Photogrammetry and Remote Sensing (ASPRS), Western Great Lakes (WGL) Region, West Lafayette, IN.
  30. Habib, A. (2016, September). LiDAR and Image-based UAV Mobile Mapping System for Agricultural Phenotyping. Seminar given at the meeting of the American Society for Photogrammetry and Remote Sensing (ASPRS), Western Great Lakes (WGL) Region, West Lafayette, IN.
  31. Habib, A. (2016, September). LiDAR and Image-based UAV Mobile Mapping System for Agricultural Phenotyping. Seminar given at the meeting of the American Society for Photogrammetry and Remote Sensing (ASPRS), Western Great Lakes (WGL) Region, West Lafayette, IN.
  32. Zhang, Z. (2016, September). Semi-Supervised Multi-Metric Active Learning for Classification of Hyperspectral Images. Seminar given at the meeting of the American Society for Photogrammetry and Remote Sensing (ASPRS), Western Great Lakes (WGL) Region, West Lafayette, IN.
  33. He, F., A. Habib, A. (2016) Performance Evaluation of Alternative Relative Orientation Procedures for UAV-based Imagery with Prior Flight Trajectory Information, The International Archives of the Photogrammetry, Remote Sensing and Spatial Information Sciences, XLI-B3 (2016), 21-25. DOI:10.5294/isprsarchives-XLI-B3-21-2016
  34. Ramamurthy, K.N., Zhang, Z., Thompson, A.M., He, F., Crawford, M., Habib, A., Weil, C., Tuinstra, M. (2016, August). Predictive Modeling of Sorghum Phenotypes with Airborne Image Features. Paper presented at the 22nd Conference of the Association for Computing Machinery (ACM) Special Interest Group (SIG) Conference on Knowledge Discovery and Data Mining (KDD), San Francisco, CA. Retrieved from http://videolectures.net/kdd2016_ramamurthy_image_features/
  35. Tuinstra, M., Crawford, M., Boomsma, C., Abe, N. (2016, August). Automated Sorghum Phenotyping and Trait Development Platform. Paper presented at the 22nd Conference of the Association for Computing Machinery (ACM) Special Interest Group (SIG) Conference on Knowledge Discovery and Data Mining (KDD), San Francisco, CA. Retrieved from http://videolectures.net/kdd2016_tuinstra_development_platform/
  36. Ribera, J., He, F., Chen, Y., Habib, A., Delp, E.J. (2016 August). Estimating Phenotypic Traits from UAV Based RGB Imagery. Paper presented at the 22nd Conference of the Association for Computing Machinery (ACM) Special Interest Group (SIG) Conference on Knowledge Discovery and Data Mining (KDD), San Francisco, CA. Retrieved from http://videolectures.net/kdd2016_ribera_phenotypic_traits/
  37. Zhang, Z., Pasolli, E., Yang, H., Crawford, M. (2016) Multimetric Active Learning Classification of Remote Sensing Data.IEEE Geoscience and Remote Sensing Letters, 13(7), 1007-1011. DOI: 10.1109/LGRS.2016.2560623
  38. Ferber, D. (June 2016). Watching the Crops Grow. Mechanical Engineering Magazine, 2016 (June). Retrieved from https://www.asme.org/engineering-topics/articles/bioengineering/watching-the-crops-grow
  39. El-bahnasawy, M., Shamseldin, T., Habib, A. (2016, April). Multi-camera Synchronization for Improved System Calibration of Image-based UAVs. Paper presented at the Annual Conference of the American Society for Photogrammetry and Remote Sensing, Fort Worth, TX.
  40. He, F., Xiong, W., Habib, A. (2016, April). UAV-based Dense Point Cloud Generation for Agriculture Applications. Paper presented at the Annual Conference of the American Society for Photogrammetry and Remote Sensing, Fort Worth, TX.
  41. Xiong, W., He, F., Habib,A. (2016, April). Feature-based Approach for the Registration of Push-broom Imagery with Frame Camera Orthophotos,Paper presented at the Annual Conference of the American Society for Photogrammetry and Remote Sensing, Fort Worth, TX.
  42. Maza, C. (March 11, 2016). Scientists turn to GMOs, robotics, and sensors in search of better biofuels. The Christian Science Monitor, 2016 (March 11). Retrieved from https://www.csmonitor.com/Environment/Energy/2016/0311/Scientists-turn-to-GMOs-robotics-and-sensors-in-search-of-better-biofuels
  43. Habib, A., Xiong, W., He, F., Yang, H.L., Crawford, M. (2016) Improving Orthorectification of UAV-Based Push-Broom Scanner Imagery Using Derived Orthophotos From Frame CamerasIEEE Journal of Selected Topics in Applied Earth Observations and Remote Sensing, 10(1), 1-15. DOI:10.1109/JSTARS.2016.2520929
  44. Habib, A. (January, 6, 2016). Small Unmanned Aerial Systems for High-throughput Phenotyping. GIM International. Retrieved from: http://www.gim-international.com/content/article/small-unmanned-aerial-systems-for-high-throughput-phenotyping
  45. Boomsma, C. Purdue TERRA: Field phenomics for biofuel trait discovery. Retrieved from: https://www.purdue.edu/terra/.
  46. UAV user manuals (internal use only) Organization: Purdue University Author: Michael Leasure
  47. Photos, videos, and Standard Operating Procedures (SOPs) from the project are being used in Unmanned Aerial System (UAS)-focused courses at Purdue University. Photos and videos from the project are also being used to promote phenotyping work being done at Purdue University.
  48. Photos, videos, and Standard Operating Procedures (SOPs) from the project are being used in Unmanned Aerial System (UAS)-focused courses at Purdue University.

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