A multispectral imaging framework for early-stage modelling and precision estimation of rice plant density using MSAVI-derived fractional vegetation cover

Abstract

Accurate early-stage estimation of rice plant density is essential for precision crop management. However, current remote sensing methods face limitations in spatial resolution, revisit frequency, and sensitivity under sparse canopy conditions, highlighting the need for scalable, high-resolution UAV-based approaches. This study presents a UAV-based multispectral imaging framework for early-stage rice plant density estimation, proposing a scalable and cost-efficient solution for precision agriculture. Fractional vegetation cover derived from the Modified Soil Adjusted Vegetation Index (MSAVI) was used as the primary predictor variable in linear regression modelling. UAV imagery was acquired across varying flight altitudes (15–30 m) and crop growth stages (14–32 DAS). Five-fold cross-validation results shows that accuracy improved with crop development, with notable gains between 14 and 20 DAS. During the early vegetative stage, RMSE ranged from 39-41 plants/m2 and MAPE averaged ~30%, reflecting moderate predictive accuracy caused by sparse canopy cover and strong soil interference. As the crop progressed to early tillering, prediction error declined, with RMSE improving to approximately 30 plants/m2 and MAPE decreasing to about 29%. This improvement was attributed to denser canopy structure and stronger spectral separation between vegetation and background soil. Further analysis identified 18–25 DAS as the optimal developmental window for reliable plant density estimation, wherein models achieved high coefficients of determination (R² = 0.9139–0.9395) and the lowest RMSE (34 plants/m2). No significant differences were observed among flight altitudes, suggesting higher-altitude flights can maintain accuracy while improving operational efficiency and coverage.

Plant phenotyping relevance

UAVマルチスペクトル画像からイネの植物密度を推定する枠組みを開発・検証しており、植物形質の取得・推定手法が研究の中心である。

Code and data availability

The article describes UAV multispectral imagery, ground-truth plant counts, and MATLAB/Pix4Dmapper analysis, but contains no data availability statement, no public dataset deposit, and no author code/model release. All URLs in the text are references to cited prior work or generic resources (IRRI Knowledge Bank, USGS M

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