Spatial and Texture Analysis of Root System Architecture with Earth Mover’s Distance (STARSEED)

October 8, 2021 in News, Publication

Abstract:

Purpose: Root system architectures are complex, multidimensional, and challenging to characterize effectively for agronomic and ecological discovery. Methods: We propose a new method, Spatial and Texture Analysis of Root System architecture with Earth mover’s Distance (STARSEED), for comparing root architectures that incorporate spatial information through a novel application of the Earth Mover’s Distance (EMD). Results: We illustrate that the approach captures the response of sesame root systems for different genotypes and soil moisture levels. STARSEED provides quantitative and visual insights into changes that occur in root architectures across experimental treatments. Conclusion: STARSEED can be easily generalized to other plants and provides insight into root system architecture development and response to varying growth conditions not captured by existing root architecture metrics and models. The code and data for our experiments are publicly available: https://github.com/GatorSense/STARSEED.

Links:

arxiv

Citation:

J. Peeples, W. Xu, R. Gloaguen, D. Rowland, A. Zare and Z. Brym, "Spatial and Texture Analysis of Root System Architecture with Earth Mover." Under Review.

@article {Peeples2021Spatial,
author = {Peeples, Joshua and Xu, Weihuang and Gloaguen, Romain and Rowland, Diane and Zare, Alina and Brym, Zachary},
title = {Spatial and Texture Analysis of Root System Architecture with Earth Mover{\textquoteright}s Distance (STARSEED)},
elocation-id = {2021.08.31.458446},
doi = {10.1101/2021.08.31.458446},
publisher = {Cold Spring Harbor Laboratory},
URL = {https://www.biorxiv.org/content/early/2021/09/01/2021.08.31.458446},
preprint = {https://www.biorxiv.org/content/early/2021/09/01/2021.08.31.458446.full.pdf},
journal = {bioRxiv}
year = {under review},