Sorin C. Popescu

Measuring individual tree crown diameter with lidar and assessing its influence on estimating forest volume and biomass

The main objective of this study was to develop reliable processing and analysis techniques to facilitate the use of small-footprint lidar data for estimating tree crown diameter by measuring individual trees identifiable on the three-dimensional lidar surface. In addition, the study explored the importance of the lidar-derived crown diameter for estimating tree volume and biomass. The lidar dataset was acquired over deciduous, coniferous, and mixed stands of varying age classes and settings typical of the southeastern United States. For identifying individual trees, lidar processing techniques used data fusion with multispectral optical data and local filtering with both square and circular windows of variable size. The crown diameter was calculated as the average of two values measured along two perpendicular directions from the location of each tree top by fitting a fourth-degree polynomial on both profiles. The lidar-derived tree measurements were used with regression models and cross-validation to estimate plot level field-measured crown diameter. Linear regression was also used to compare plot level tree volume and biomass estimation with and without lidar-derived crown diameter measures from individual trees. Results for estimating crown diameter were similar for both pines and deciduous trees, with R2 values of 0.62‐0.63 for the dominant trees (root mean square error (RMSE) 1.36 to 1.41 m). Lidar-measured crown diameter improved R2 values for volume and biomass estimation by up to 0.25 for both pines and deciduous plots (RMSE improved by up to 8 m3/ha for volume and 7 Mg/ha for biomass). For the pine plots, average crown diameter alone explained 78% of the variance associated with biomass (RMSE 31.28 Mg/ha) and 83% of the variance for volume (RMSE 47.90 m3/ha).

Seeing the Trees in the Forest: Using Lidar and Multispectral Data Fusion with Local Filtering and Variable Window Size for Estimating Tree Height

The main study objective was to develop robust processing and analysis techniques to facilitate the use of small-footprint lidar data for estimating plot-level tree height by measuring individual trees identifiable on the three-dimensional lidar surface. Lidar processing techniques included data fusion with multispectral optical data and local filtering with both square and circular windows of variable size. The lidar system used for this study produced an average footprint of 0.65 m and an average distance between laser shots of 0.7 m. The lidar data set was acquired over deciduous and coniferous stands with settings typical of the southeastern United States. The lidar-derived tree measurements were used with regression models and cross-validation to estimate tree height on 0.017-ha plots. For the pine plots, lidar measurements explained 97 percent of the variance associated with the mean height of dominant trees. For deciduous plots, regression models explained 79 percent of the mean height variance for dominant trees. Filtering for local maximum with circular windows gave better fitting models for pines, while for deciduous trees, filtering with square windows provided a slightly better model fit. Using lidar and optical data fusion to differentiate between forest types provided better results for estimating average plot height for pines. Estimating tree height for deciduous plots gave superior results without calibrating the search window size based on forest type.

An International Comparison of Individual Tree Detection and Extraction Using Airborne Laser Scanning

The objective of the “Tree Extraction” project organized by EuroSDR (European Spatial data Research) and ISPRS (International Society of Photogrammetry and Remote Sensing) was to evaluate the quality, accuracy, and feasibility of automatic tree extraction methods, mainly based on laser scanner data. In the final report of the project, Kaartinen and Hyyppa (2008) reported a high variation in the quality of the published methods under boreal forest conditions and with varying laser point densities. This paper summarizes the findings beyond the final report after analyzing the results obtained in different tree height classes. Omission/Commission statistics as well as neighborhood relations are taken into account. Additionally, four automatic tree detection and extraction techniques were added to the test. Several methods in this experiment were superior to manual processing in the dominant, co-dominant and suppressed tree storeys. In general, as expected, the taller the tree, the better the location accuracy. The accuracy of tree height, after removing gross errors, was better than 0.5 m in all tree height classes with the best methods investigated in this experiment. For forest inventory, minimum curvature-based tree detection accompanied by point cloud-based cluster detection for suppressed trees is a solution that deserves attention in the future.

Unmanned Aerial Vehicles for High-Throughput Phenotyping and Agronomic Research

Advances in automation and data science have led agriculturists to seek real-time, high-quality, high-volume crop data to accelerate crop improvement through breeding and to optimize agronomic practices. Breeders have recently gained massive data-collection capability in genome sequencing of plants. Faster phenotypic trait data collection and analysis relative to genetic data leads to faster and better selections in crop improvement. Furthermore, faster and higher-resolution crop data collection leads to greater capability for scientists and growers to improve precision-agriculture practices on increasingly larger farms; e.g., site-specific application of water and nutrients. Unmanned aerial vehicles (UAVs) have recently gained traction as agricultural data collection systems. Using UAVs for agricultural remote sensing is an innovative technology that differs from traditional remote sensing in more ways than strictly higher-resolution images; it provides many new and unique possibilities, as well as new and unique challenges. Herein we report on processes and lessons learned from year 1—the summer 2015 and winter 2016 growing seasons–of a large multidisciplinary project evaluating UAV images across a range of breeding and agronomic research trials on a large research farm. Included are team and project planning, UAV and sensor selection and integration, and data collection and analysis workflow. The study involved many crops and both breeding plots and agronomic fields. The project’s goal was to develop methods for UAVs to collect high-quality, high-volume crop data with fast turnaround time to field scientists. The project included five teams: Administration, Flight Operations, Sensors, Data Management, and Field Research. Four case studies involving multiple crops in breeding and agronomic applications add practical descriptive detail. Lessons learned include critical information on sensors, air vehicles, and configuration parameters for both. As the first and most comprehensive project of its kind to date, these lessons are particularly salient to researchers embarking on agricultural research with UAVs.

Terrestrial Laser Scanning as an Effective Tool to Retrieve Tree Level Height, Crown Width, and Stem Diameter

Accurate measures of forest structural parameters are essential to forest inventory and growth models, managing wildfires, and modeling of carbon cycle. Terrestrial laser scanning (TLS) fills the gap between tree scale manual measurements and large scale airborne LiDAR measurements by providing accurate below crown information through non-destructive methods. This study developed innovative methods to extract individual tree height, diameter at breast height (DBH), and crown width of trees in East Texas. Further, the influence of scan settings, such as leaf-on/leaf-off seasons, tree distance from the scanner, and processing choices, on the accuracy of deriving tree measurements were also investigated. DBH was retrieved by cylinder fitting at different height bins. Individual trees were extracted from the TLS point cloud to determine tree heights and crown widths. The R-squared value ranged from 0.91 to 0.97 when field measured DBH was validated against TLS derived DBH using different methods. An accuracy of 92% (RMSE = 1.51 m) was obtained for predicting tree heights. The R-squared value was 0.84 and RMSE was 1.08 m when TLS derived crown widths were validated using field measured crown widths. Examples of underestimations of field measured forest structural parameters due to tree shadowing have also been discussed in this study. The results from this study will benefit foresters and remote sensing studies from airborne and spaceborne platforms, for map upscaling or calibration purposes, for aboveground biomass estimation, and prudent decision making by the forest management.

Modeling Forest Aboveground Biomass and Volume Using Airborne LiDAR Metrics and Forest Inventory and Analysis Data in the Pacific Northwest

The United States Forest Service Forest Inventory and Analysis (FIA) Program provides a diverse selection of data used to assess the status of the nation’s forests using sample locations dispersed throughout the country. Airborne laser scanning (ALS) systems are capable of producing accurate measurements of individual tree dimensions and also possess the ability to characterize forest structure in three dimensions. This study investigates the potential of discrete return ALS data for modeling forest aboveground biomass (AGBM) and gross volume (gV) at FIA plot locations in the Malheur National Forest, eastern Oregon utilizing three analysis levels: (1) individual subplot (r = 7.32 m); (2) plot, comprising four clustered subplots; and (3) hectare plot (r = 56.42 m). A methodology for the creation of three point cloud-based airborne LiDAR metric sets is presented. Models for estimating AGBM and gV based on LiDAR-derived height metrics were built and validated utilizing FIA estimates of AGBM and gV derived using regional allometric equations. Simple linear regression models based on the plot-level analysis out performed subplot-level and hectare-level models, producing R2 values of 0.83 and 0.81 for AGBM and gV, utilizing mean height and the 90th height percentile as predictors, respectively. Similar results were found for multiple regression models, where plot-level analysis produced models with R2 values of 0.87 and 0.88 for AGBM and gV, utilizing multiple height percentile metrics as predictor variables. Results suggest that the current FIA plot design can be used with dense airborne LiDAR data to produce area-based estimates of AGBM and gV, and that the increased spatial scale of hectare plots may be inappropriate for modeling AGBM of gV unless exhaustive tree tallies are available. Overall, this study demonstrates that ALS data can be used to create models that describe the AGBM and gV of Pacific Northwest FIA plots and highlights the potential of estimates derived from ALS data to augment current FIA data collection procedures by providing a temporary intermediate estimation of AGBM and gV for plots with outdated field measurements.

Bayesian Learning with Gaussian Processes for Supervised Classification of Hyperspectral Data

Recent advances in kernel machines promote the novel use of Gaussian processes (GP) for Bayesian learning. Our purpose is to introduce GP models into the remote sensing community for supervised learning as exemplified in this study for classifying hyperspectral images. We first provided the mathematical formulation of GP models concerning both regression and classification; described several GP classifiers (GPCLs) and the automatic learning of kernel parameters; and then, examined the effectiveness of GPCLs compared with K-nearest neighbor (KNN) and Support Vector Machines (SVM). Experiment results on an Airborne Visible/Infrared Imaging Spectroradiometer image indicate that the GPCLs outperform KNN and yield classification accuracies comparable to or even better than SVMs. This study shows that GP models, though with a larger computation scaling than SVM, bring a competitive tool for remote sensing applications related to classification or possibly regression, particularly with small or moderate sizes of training datasets.

The Use of Terrestrial Laser Scanning (TLS) in Dune Ecosystems: The Lessons Learned

ABSTRACT Feagin, R.A.; Williams, A.M.; Popescu, S.; Stukey, J., and Washington-Allen, R.A., 2014. The use of terrestrial laser scanning (TLS) in dune ecosystems: the lessons learned. This paper presents a methodology for using terrestrial laser scanning (TLS) to quantify sand dune geomorphology. As an example of the use of TLS, we present methods that were used to investigate changes in sediment and vegetation volumes after Hurricane Ike. We collected TLS data within a 100 m × 100 m plot on the East Matagorda Peninsula, Texas, from early September 2008 (before landfall) to early October 2009 (a year after landfall). Terrestrial laser scanning-collected laser point clouds were then interpolated into several grid sizes. From several interpolated grid sizes, 0.50 m × 0.50 m grids were determined best for analysis as they were able to compromise two competing resolution-related issues: gaps caused by vegetation shadows and the natural contours of the dune. We outline several additional lessons to aid coastal researchers in strengthening their own future work: the use of reference survey stakes in an unstable environment, the development of a novel method to test for errors in point cloud registration among multiple dates, how best to interpret sediment and vegetation change analysis as derived from interpolated grids, and suggestions for incorporating mass-based sedimentary and biomass-based vegetation field studies within the volumetric context of TLS analysis.

An IPCC-Compliant Technique for Forest Carbon Stock Assessment Using Airborne LiDAR-Derived Tree Metrics and Competition Index

This study developed an IPCC (Intergovernmental Panel on Climate Change) compliant method for the estimation of above-ground carbon (AGC) in forest stands using remote sensing technology. A multi-level morphological active contour (MMAC) algorithm was employed to obtain tree-level metrics (tree height (LH), crown radius (LCR), competition index (LCI), and stem diameter (LDBH)) from an airborne LiDAR-derived canopy height model. Seven biomass-based AGC models and 13 volume-based AGC models were developed using a training dataset and validated using a separate validation dataset. Four accuracy measures, mean absolute error (MAE), root-mean-square error (RMSE), percentage RMSE (PRMSE), and root-mean-square percentage error (RMSPE) were calculated for each of the 20 models. These measures were transformed into a new index, accuracy improvement percentage (AIP), for post hoc testing of model performance in estimating forest stand AGC stock. Results showed that the tree-level AGC models explained 84% to 91% of the variance in tree-level AGC within the training dataset. Prediction errors (RMSEs) for these models ranged between 15 ton/ha and 210 ton/ha in mature forest stands, which is equal to an error percentage in the range 6% to 86%. At the stand-level, several models achieved accurate and reliable predictions of AGC stock. Some models achieved 90% to 95% accuracy, which was equal to or superior to the R-squared of the tree-level AGC models. The first recommended model was a biomass-based model using the metrics LDBH, LH, and LCI and the others were volume-based models using LH, LCI, and LCR and LDBH and LH. One metric, LCI, played a critical role in upgrading model performance when banded together with LH and LCR or LDBH and LCR. We conclude by proposing an IPCC-compatible method that is suitable for calculating tree-level AGC and predicting AGC stock of forest stands from airborne LiDAR data.

Classification of Tree Species in Overstorey Canopy of Subtropical Forest Using QuickBird Images.

This paper proposes a supervised classification scheme to identify 40 tree species (2 coniferous, 38 broadleaf) belonging to 22 families and 36 genera in high spatial resolution QuickBird multispectral images (HMS). Overall kappa coefficient (OKC) and species conditional kappa coefficients (SCKC) were used to evaluate classification performance in training samples and estimate accuracy and uncertainty in test samples. Baseline classification performance using HMS images and vegetation index (VI) images were evaluated with an OKC value of 0.58 and 0.48 respectively, but performance improved significantly (up to 0.99) when used in combination with an HMS spectral-spatial texture image (SpecTex). One of the 40 species had very high conditional kappa coefficient performance (SCKC ≥ 0.95) using 4-band HMS and 5-band VIs images, but, only five species had lower performance (0.68 ≤ SCKC ≤ 0.94) using the SpecTex images. When SpecTex images were combined with a Visible Atmospherically Resistant Index (VARI), there was a significant improvement in performance in the training samples. The same level of improvement could not be replicated in the test samples indicating that a high degree of uncertainty exists in species classification accuracy which may be due to individual tree crown density, leaf greenness (inter-canopy gaps), and noise in the background environment (intra-canopy gaps). These factors increase uncertainty in the spectral texture features and therefore represent potential problems when using pixel-based classification techniques for multi-species classification.