Assessing plant population of cotton is important to make replanting decisions in low plant density areas, prone to yielding penalties. Since the measurement of plant population in the field is labor intensive and subject to error, in this study, a new approach of image-based plant counting is proposed, using unmanned aircraft systems (UAS; DJI Mavic 2 Pro, Shenzhen, China) data. The previously developed image-based techniques required a priori information of geometry or statistical characteristics of plant canopy features, while also limiting the versatility of the methods in variable field conditions. In this regard, a deep learning-based plant counting algorithm was proposed to reduce the number of input variables, and to remove requirements for acquiring geometric or statistical information. The object detection model named You Only Look Once version 3 (YOLOv3) and photogrammetry were utilized to separate, locate, and count cotton plants in the seedling stage. The proposed algorithm was tested with four different UAS datasets, containing variability in plant size, overall illumination, and background brightness. Root mean square error (RMSE) and R² values of the optimal plant count results ranged from 0.50 to 0.60 plants per linear meter of row (number of plants within 1 m distance along the planting row direction) and 0.96 to 0.97, respectively. The object detection algorithm, trained with variable plant size, ground wetness, and lighting conditions generally resulted in a lower detection error, unless an observable difference of developmental stages of cotton existed. The proposed plant counting algorithm performed well with 0–14 plants per linear meter of row, when cotton plants are generally separable in the seedling stage. This study is expected to provide an automated methodology for in situ evaluation of plant emergence using UAS data.

This study presents a comparative study of multispectral and RGB (red, green, and blue) sensor-based cotton canopy cover modelling using multi-temporal unmanned aircraft systems (UAS) imagery. Additionally, a canopy cover model using an RGB sensor is proposed that combines an RGB-based vegetation index with morphological closing. The field experiment was established in 2017 and 2018, where the whole study area was divided into approximately 1 x 1 m size grids. Grid-wise percentage canopy cover was computed using both RGB and multispectral sensors over multiple flights during the growing season of the cotton crop. Initially, the normalized difference vegetation index (NDVI)-based canopy cover was estimated, and this was used as a reference for the comparison with RGB-based canopy cover estimations. To test the maximum achievable performance of RGB-based canopy cover estimation, a pixel-wise classification method was implemented. Later, four RGB-based canopy cover estimation methods were implemented using RGB images, namely Canopeo, the excessive greenness index, the modified red green vegetation index and the red green blue vegetation index. The performance of RGB-based canopy cover estimation was evaluated using NDVI-based canopy cover estimation. The multispectral sensor-based canopy cover model was considered to be a more stable and accurately estimating canopy cover model, whereas the RGB-based canopy cover model was very unstable and failed to identify canopy when cotton leaves changed color after canopy maturation. The application of a morphological closing operation after the thresholding significantly improved the RGB-based canopy cover modeling. The red green blue vegetation index turned out to be the most efficient vegetation index to extract canopy cover with very low average root mean square error (2.94% for the 2017 dataset and 2.82% for the 2018 dataset), with respect to multispectral sensor-based canopy cover estimation. The proposed canopy cover model provides an affordable alternate of the multispectral sensors which are more sensitive and expensive.

The measurement of forest structure has evolved steadily due to advances in technology, methodology, and theory. Such advances have greatly increased our capacity to describe key forest structural elements and resulted in a range of measurement approaches from traditional analog tools such as measurement tapes to highly derived and computationally intensive methods such as advanced remote sensing tools (e.g., lidar, radar). This assortment of measurement approaches results in structural metrics unique to each method, with the caveat that metrics may be biased or constrained by the measurement approach taken. While forest structural diversity (FSD) metrics foster novel research opportunities, understanding how they are measured or derived, limitations of the measurement approach taken, as well as their biological interpretation is crucial for proper application. We review the measurement of forest structure and structural diversity—an umbrella term that includes quantification of the distribution of functional and biotic components of forests. We consider how and where these approaches can be used, the role of technology in measuring structure, how measurement impacts extend beyond research, and current limitations and potential opportunities for future research.

Large‐scale ecological sampling networks, such as national forest inventories (NFIs), collect in situ data to support biodiversity monitoring, forest management and planning, and greenhouse gas reporting. Data harmonization aims to link auxiliary remotely sensed data to field‐collected data to expand beyond field sampling plots, but outliers that arise in data harmonization—questionable observations because their values differ substantially from the rest—are rarely addressed. In this paper, we review the sources of commonly occurring outliers, including random chance (statistical outliers), definitions and protocols set by sampling networks, and temporal and spatial mismatch between field‐collected and remotely sensed data. We illustrate different types of outliers and the effects they have on estimates of above‐ground biomass population parameters using a case study of 292 NFI plots paired with airborne laser scanning (ALS) and Sentinel‐2 data from Sawyer County, Wisconsin, United States. Depending on the criteria used to identify outliers (sampling year, plot location error, nonresponse, presence of zeros and model residuals), as many as 53 of the 292 Forest Inventory and Analysis plot observations (18%) were identified as potential outliers using a single criterion and 111 plot observations (38%) if all criteria were used. Inclusion or removal of potential outliers led to substantial differences in estimates of mean and standard error of the estimate of biomass per unit area. The simple expansion estimator, which does not rely on ALS or other auxiliary data, was more sensitive to outliers than model‐assisted approaches that incorporated ALS and Sentinel‐2 data. Including Sentinel‐2 predictors showed minimal increases to the precision of our estimates relative to models with ALS predictors alone. Outliers arise from many causes and can be pervasive in data harmonization workflows. Our review and case study serve as a note of caution to researchers and practitioners that the inclusion or removal of potential outliers can have unintended consequences on population parameter estimates. When used to inform large‐scale biomass mapping, carbon markets, greenhouse gas reporting and environmental policy, it is necessary to ensure the proper use of NFI and remotely sensed data in geospatial data harmonization.

Forest canopy height model (CHM) is useful for analyzing forest stocking and its spatiotemporal variations. However, high-resolution CHM with regional coverage is commonly unavailable due to the high cost of LiDAR data acquisition and computational cost associated with data processing. We present a CHM generation method using U.S. Geological Survey (USGS) 3D Elevation Program (3DEP) LiDAR data for tree height measurement capabilities for entire state of Indiana, USA. The accuracy of height measurement was investigated in relation to LiDAR point density, inventory height, and the timing of data collection. A simple data exploratory analysis (DEA) was conducted to identify problematic input data. Our CHM model has high accuracy compared to field-based height measurement (R² = 0.85) on plots with relatively accurate GPS locations. Our study provides an easy-to-follow workflow for 3DEP LiDAR based CHM generation in a parallel processing environment for a large geographic area. In addition, the resulting CHM can serve as critical baseline information for monitoring and management decisions, as well as the calculation of other key forest metrics such as biomass and carbon storage.

Tar spot is a foliar disease of corn characterized by fungal fruiting bodies that resemble tar spots. The disease emerged in the U.S. in 2015, and severe outbreaks in 2018 caused an economic impact on corn yields throughout the Midwest. Adequate epidemiological surveillance and disease quantification are necessary to develop immediate and long-term management strategies. This study presents a measurement framework that evaluates the disease severity of tar spot using unmanned aircraft systems (UAS)-based plant phenotyping and regression techniques. UAS-based plant phenotypic information, such as canopy cover, canopy volume, and vegetation indices, were used as explanatory variables. Visual estimations of disease severity were performed by expert plant pathologists per experiment plot basis and used as response variables. Three regression methods, namely ordinary least squares (OLS), support vector regression (SVR), and multilayer perceptron (MLP), were used to determine an optimal regression method for UAS-based tar spot measurement. The cross-validation results showed that the regression model based on MLP provides the highest accuracy of disease measurements. By training and testing the model with spatially separated datasets, the proposed regression model achieved a Lin’s concordance correlation coefficient (ρ_c) of 0.82 and a root mean square error (RMSE) of 6.42. This study demonstrated that we could use the proposed UAS-based method for the disease quantification of tar spot, which shows a gradual spectral response as the disease develops.