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Bayesian hierarchical approach to longitudinal high-throughput plant phenotyping
  • Jeffrey Berry,
  • Josh Sumner,
  • Noah Fahlgren
Jeffrey Berry
Donald Danforth Plant Science Center, Donald Danforth Plant Science Center, Donald Danforth Plant Science Center, Donald Danforth Plant Science Center

Corresponding Author:[email protected]

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Josh Sumner
Washington University School of Medicine, Washington University School of Medicine, Washington University School of Medicine, Washington University School of Medicine
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Noah Fahlgren
Donald Danforth Plant Science Center, Donald Danforth Plant Science Center, Donald Danforth Plant Science Center, Donald Danforth Plant Science Center
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Abstract

High-throughput plant phenotyping is increasingly implemented in a wide array of experimentation and presents challenges both logistically and analytically. Phenotype data are often longitudinal and proper modeling of plant growth requires sophisticated modeling techniques to account for the intra-plant correlations and changing variation over time (heteroskedasticity). For this reason, plant growth is often analyzed by comparing only single time points or the start and end points for inference with no regard for the trends themselves. Single time point analysis can be sufficient for simple biological comparisons, but modeling has the potential to unlock additional insights by utilizing all the information at hand. Current plant growth modeling strategies do account for intra-plant correlations but are still limited to constant variance assumptions and therefore perform sub-optimally. Here we propose a Bayesian hierarchical approach as an alternative method for plant growth modeling by demonstrating the utility of heteroskedastic sub-model parameterizations. We show that accounting for heteroskedasticity greatly improves model accuracy and subsequent inference. Additionally, Bayesian methodologies inherently lend themselves to near real-time model updating and we propose integration with Clowder to facilitate adaptive experimental designs. We show by example the utility of Bayesian updating and how it relates to experimental decision making.