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Automated hyperspectral vegetation index derivation using a hyperparameter optimisation framework for high‐throughput plant phenotyping
Author(s) -
Koh Joshua C.O.,
Banerjee Bikram P.,
Spangenberg German,
Kant Surya
Publication year - 2022
Publication title -
new phytologist
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.742
H-Index - 244
eISSN - 1469-8137
pISSN - 0028-646X
DOI - 10.1111/nph.17947
Subject(s) - hyperspectral imaging , vegetation (pathology) , remote sensing , estimator , computer science , mathematics , biological system , statistics , artificial intelligence , biology , medicine , pathology , geology
Summary Hyperspectral vegetation indices (VIs) are widely deployed in agriculture remote sensing and plant phenotyping to estimate plant biophysical and biochemical traits. However, existing VIs consist mainly of simple two‐band indices that limit the net performance and often do not generalise well for traits other than those for which they were originally designed. We present an automated hyperspectral vegetation index (AutoVI) system for the rapid generation of novel two‐ to six‐band trait‐specific indices in a streamlined process covering model selection, optimisation and evaluation, driven by the tree parzen estimator algorithm. Its performance was tested in generating novel indices to estimate chlorophyll and sugar contents in wheat. Results showed that AutoVI can rapidly generate complex novel VIs (at least a four‐band index) that correlated strongly ( R 2 > 0.8) with measured chlorophyll and sugar contents in wheat. Automated hyperspectral vegetation index‐derived indices were used as features in simple and stepwise multiple linear regressions for chlorophyll and sugar content estimation, and outperformed the results achieved with the existing 47 VIs and those provided using partial least squares regression. The AutoVI system can deliver novel trait‐specific VIs readily adoptable to high‐throughput plant phenotyping platforms and should appeal to plant scientists and breeders. A graphical user interface for the AutoVI is provided here.