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DOE OSTI2025

Data from: 'Abiotic influences on continuous conifer forest structure across a subalpine watershed'

This package archives the core data used for analysis and inference in 'Abiotic influences on continuous conifer forest structure across a subalpine watershed' (Worsham et al., 2025). All data were collected in the East River, Washington Gulch, Slate River, and Coal Creek watersheds of Colorado. In the paper, we quantified the relative influence of climate, topographic, edaphic, and geologic factors on conifer stand structure and composition, and their functional relationships, at the watershed scale. We used waveform LiDAR data to derive spatially continuous stand structure metrics. We fused these with a species-level classification map to estimate tree species abundance. We applied generalized additive and generalized boosted models to evaluate the covariability of structural and compositional metrics with abiotic variables. The package contains the essential products required for reproducing our analysis and the tables and figures reported in the publication. The products comprise four classes: (1) geospatial data, (2) tabular data used for inferential analysis, (3) tabular data describing analytical results and performance statistics, and (4) a data user guide. (1) includes discretized waveform LiDAR data, locations and attributes of individual tree crowns, sampling locations and domain boundaries, a canopy height model, and raster files of estimated forest structural and compositional metrics at 100 m grid scale. (2) includes all response and explanatory variable values applied in inferential models. Response variables include conifer forest stand density, basal area, 95th percentile height, quadratic mean diameter, and others. Explanatory variables include climatic water deficit, actual evapotranspiration, elevation, heat load, soil available water content, and others. (3) includes results of training and testing several individual tree detection (ITD) algorithms, as well as inferential modeling results. (4) is a PDF user guide for this data package, including detailed descriptions and data dictionaries for all files. The data package root contains 17 assets: 8 compressed tape archive (.tar.gz) files, 5 comma-separated values (.csv) files, 3 Geographic Tagged Image File Format (GeoTIFF) (.tif) files, and 1 Portable Document Format (.pdf) file. The compressed .tar.gz archives contain ESRI shapefiles (.shp) .tif, compressed LASer (.laz), and .csv files. The archives must first be decompressed using the widely distributed command-line software utility TAR. All other files, including constituent files within the .tar.gz archives, can be opened in the open-source R statistical computing environment. Alternatively, .csv files may also be read in any simple text editor software or Microsoft Excel. Geospatial files including .shp and .tif files can also be opened in GIS software, such as QGIS (open-source) or ESRI ArcGIS (proprietary). The .pdf Data User Guide can be read with Adobe Acrobat Reader or other compatible readers.

2018 NEON and 2025 CHESS Campaigns↗

DOE OSTI2026

Vegetation classification map and covariates associated with NEON AOP survey, East River, CO 2018

This package includes geospatial data layers developed to investigate how environmental gradients—specifically topography and near-surface soil properties—drive the spatial arrangement of dominant plant communities in mountainous watersheds. The geospatial products, which support the analysis of these ecological relationships, are derived from airborne hyperspectral and LiDAR datasets acquired by the National Ecological Observatory Network (NEON) Airborne Observation Platform (AOP), in conjunction with an extensive ground field campaign conducted in summer 2018. This work is part of the DOE Watershed Function Science Focus Area (SFA) and features geospatial datasets developed based on observations and ground data collected at East River, Colorado, in collaboration with the National Ecological Observatory Network (NEON) Airborne Observation Platform (AOP) survey in June 2018. Classification Map: - Classification Map (PNG, GeoTIFF): Derived from hyperspectral and LiDAR airborne data using a machine learning approach. - Class Code Mapper (CSV): Associates pixel values with corresponding vegetation/non-vegetation classes. - Classification Reference Data (CSV): Reference data used in the machine learning procedure. LiDAR-Derived Products: - Topographical Metrics (GeoTIFFs): Elevation, slope, curvature, TWI, TPI, solar insolation, and canopy height model (CHM), smoothed with a 5x5 pixel window. Vegetation Indices: - GeoTIFFs of NDVI, NDNI, NDWI: Vegetation indices derived from hyperspectral data. Urban Masks: - Urban Mask (GeoTIFF): Applied to the mapping to convert bare soil classes to urban classes. Software Compatibility: GeoTIFFs: Can be visualized with GIS software or libraries that support GeoTIFF images. CSV Files: Can be opened with any software that handles comma-separated values. The FLMD file provides details and links to the source datasets used to derive the products. The manuscript (in the Method session) provides details on how each product was derived. This work was supported by the Watershed Function Science Focus Area at Lawrence Berkeley National Laboratory funded by the US Department of Energy, Office of Science, Biological and Environmental Research under Contract No. DE-AC02-05CH11231. Update on 2026-03-25: Since the original dataset publication date of 02/28/2020, this package has a new classification map derived by an improved methodology. This update also includes additional ground data that improved the representation of some of the communities. See the methods for further details on what has changed between versions.

2018 NEON and 2025 CHESS Campaigns↗

DOE OSTI2026

AmeriFlux FLUXNET-1F US-Dk3 Duke Forest - loblolly pine

This is the AmeriFlux Management Project (AMP) created FLUXNET-1F version of the carbon flux data for the site US-Dk3 Duke Forest - loblolly pine. This is the FLUXNET version of the carbon flux data for the site US-Dk3 Duke Forest - loblolly pine produced by applying the standard ONEFlux (1F) software. Site Description - The site was established in 1983 following a clear cut and a burn. Pinus taeda L. (loblolly pine) seedlings were planted at 2.4m by 2.4m spacing and ecosystem development has not been managed after planting. Canopy height increased from 16m in 2001 to 18m in 2004. The canopy is comprised primarily of P. taeda with some emergent Liquidambar styraciflua L. and a diverse and growing understory with 26 different woody species of diameter breast height 42.5 cm. The flux tower lies upwind of the CO2-enriched components of the free atmosphere carbon enrichment (FACE) facility located in the same pine forest. EC instrumentation is at 20.2m on a 22m tower.

Oishi, Chris [USDA Forest Service]↗

NASA NTRS2007

Simulation Studies of Forest Structure using 3D Lidar and Radar Models

The use of lidars and radars to measure forest structure attributes such as height and biomass are being considered for future Earth Observation missions. Large footprint lidar makes a direct measurement of the heights of scatterers in the illuminated footprint and can yield information about the vertical profile of the canopy. Synthetic Aperture Radar (SAR) is known to sense the canopy volume, especially at longer wavelengths and is useful for estimating biomass. Interferometric SAR (InSAR) has been shown to yield forest canopy height information. For example, the height of scattering phase retrieved from InSAR data is considered to be correlated with the three height and the spatial structure of the forest stand. There is much interest in exploiting these technologies separately and together to get important information for carbon cycle and ecosystem science. More detailed information of the electromagnetic radiation interactions within forest canopies is needed. And backscattering models can be of much utility here. As part of a NASA funded project to explore data fusion, a three-dimensional (3D) coherent radar backscattering model and a 3D lidar backscatter models were used to investigate the use of large footprint lidar, SAR and InSAR for characterizing realistic forest scenes. For this paper, we use stem maps and other forest measurements to develop a realistic spatial structure of a spruce-hemlock forest canopy found in Maine, USA. The radar and lidar models used measurements of the 3D forest scene as input and simulated the coherent radar backscattering signature and 1064nm energy backscatter, respectively. The relationships of backscatter derived forest structure were compared with field measurements. In addition, we also had detailed airborne lidar (Laser Imaging Vegetation Sensor, LVIS) data available over the stem map sites that was used to study the accuracies of tree height derived from modeled SAR backscatter and the scattering phase center retrieved from the simulated InSAR data will be compared with the height indices, or other structure parameters derived from the lidar data. These results will address the possible synergies between lidar and radar in data in terms of forest structural information.

Sun, Guoqing↗

NASA NTRS2021

Comprehensive Comparison of Airborne and Spaceborne SAR and LiDAR Estimates of Forest Structure in the Tallest Mangrove Forest on Earth

A recent suite of new global-scale satellite sensors and regional-scale airborne campaigns are providing a wealth of remote sensing data capable of dramatically advancing our current understanding of the spatial distribution of forest structure and carbon stocks. However, a baseline for forest stature and biomass estimates has yet to be established for the wide array of available remote sensing products. At present, it remains unclear how the estimates from these sensors compare to one another in terrestrial forests, with a clear dearth of studies in high carbon density mangrove ecosystems. In the tallest mangrove forest on Earth (Pongara National Park, Gabon), we leverage the data collected during the AfriSAR campaign to evaluate 17 state-of-the-art sensor data products across the full range of height and biomass known to exist globally in mangrove forest ecosystems, providing a much-needed baseline for sensor performance. Our major findings are: (Houghton, Hall, Goetz) height estimates are not consistent across products, with opposing trends in relative and absolute errors, highlighting the need for an adaptive approach to constraining height estimates (Panet al., 2011); radar height estimates had the lowest calibration error and bias, with further improvements using LiDAR fusion (Bonan, 2008); biomass variability and uncertainty strongly depends on forest stature, with variation across products increasing with canopy height, while relative biomass variation was highest in low-stature stands (Le Quéréet al., 2017); a remote sensing product's sensitivity to variations in canopy structure is more important than the absolute accuracy of height estimates (Mitchardet al., 2014); locally-calibrated area-wide totals are more representative than generalized global biomass models for high-precision biomass estimates. The findings presented here provide critical baseline expectations for height and biomass predictions across the full range of mangrove forest stature, which can be directly applied to current (TanDEM-X, GEDI, ICESat-2) and future (NISAR, BIOMASS) global-scale forest monitoring missions.

Atticus E.L. Stovall↗

NASA NTRS1989

Modeling directional thermal radiance from a forest canopy

The thermal vegetation canopy radiance model of Smith et al. (1981) is extended to account for the geometrically rough structure of a forest canopy. Fourier series expansion of a canopy height profile is used to calculate improved view facts which partially account for directional variations in canopy thermal radiance transfers. Predictions from the Smith model and the modified model are compared with experimental data obtained over a deciduous forest site in Tennessee. The results show that thermal radiance from a forest canopy depends on sensor viewing angle, solar position, and the degree of geometric roughness of the canopy surface. The maximum off-nadir angle variation in the original model was 1.6 deg C, compared with 4.4 C for the modified model.

Mcguire, M. J.↗

NASA NTRS2001

ICESat's Laser Measurements of Polar Ice, Atmosphere, Ocean, and Land

The Ice, Cloud and Land Elevation Satellite (ICESat) mission will measure changes in elevation of the Greenland and Antarctic ice sheets as part of NASA's Earth Observing System (EOS) of satellites. Time-series of elevation changes will enable determination of the present-day mass balance of the ice sheets, study of associations between observed ice changes and polar climate, and estimation of the present and future contributions of the ice sheets to global sea level rise. Other scientific objectives of ICESat include: global measurements of cloud heights and the vertical structure of clouds and aerosols; precise measurements of land topography and vegetation canopy heights; and measurements of sea ice roughness, sea ice thickness, ocean surface elevations, and surface reflectivity. The Geoscience Laser Altimeter System (GLAS) on ICESat has a 1064 nm laser channel for surface altimetry and dense cloud heights and a 532 nm lidar channel for the vertical distribution of clouds and aerosols. The accuracy of surface ranging is 10 cm, averaged over 60 m diameter laser footprints spaced at 172 m along-track. The orbital altitude will be around 600 km at an inclination of 94 deg with a 183-day repeat pattern. The onboard GPS receiver will enable radial orbit determinations to better than 5 cm, and star-trackers will enable footprints to be located to 6 m horizontally. The spacecraft attitude will be controlled to point the laser beam to within +/- 35 m of reference surface tracks at high latitudes. ICESat is designed to operate for 3 to 5 years and should be followed by successive missions to measure ice changes for at least 15 years.

Zwally, H. J.↗

NASA NTRS2003

ICESat's Laser Measurements of Polar Ice, Atmosphere, Ocean, and Land

NASA's Ice, Cloud and Land Elevation Satellite (ICESat) mission is designed to measure changes in elevation of the Greenland and Antarctic ice sheets beginning in January 2003. Time-series of elevation changes will enable determination of the present- day mass balance of the ice sheets, study of associations between observed ice changes and polar climate, and estimation of the present and future contributions of the ice sheets to global sea level rise. Other scientific objectives of ICESat include: global measurements of cloud heights and the vertical structure of clouds and aerosols; precise measurements of land topography and vegetation canopy heights; and measurements of sea ice roughness, sea ice thickness, ocean surface elevations, and surface reflectivity. The Geoscience Laser Altimeter System (GLAS) on ICESat has a 1064 nm laser channel for surface altimetry and dense cloud heights and a 532 nm lidar channel for the vertical distribution of clouds and aerosols. Differences between the characteristics of laser and radar altimetry, such as effective depth of the backscattered signal, elevation accuracy, and footprint location, and their relevance to inter-relating measurements from ERS, Envisat, ICESat, and Cryosat are discussed. Preliminary ICESat results obtained during the calibration and validation period of ICESat are described. ICESat is designed to operate for 3 to 5 years and should be followed by successive missions to measure ice changes for at least 15 years.

Zwally H. Jay↗

NASA NTRS2003

ICESat's Laser Measurements of Polar Ice and Atmospheres

Zwally, H. Jay↗

NASA NTRS1987

Correlation between aircraft MSS and lidar remotely sensed data on a forested wetland

Inland wetland in a portion of the Savannah River swamp forest were mapped with an overall accuracy of 88.5 percent on April 26,l985 using high resolution aircraft Daedalus AADS-1268 MSS data. In addition, data were acquired using a NASA sensor system flown along two flight lines over the Steel Creek Delta. The data were significantly correlated with in situ tree height measurements. The data were registered to the wetland classification map and correlated. Statistical analyses demonstrated that the laser derived canopy height information was significantly associated with the Steel Creek Delta wetland classes encountered along the transect (an F-value of 58.46 at the 0.0001 level of confidence). The relationship between vegetation height and vegetation type was then used to produce a three-dimensional model of the landscape which can be of value when computing biomass or canopy density in this forested wetland environment.

Jensen, John R.↗

NASA NTRS2012

Contrasting Patterns of Damage and Recovery in Logged Amazon Forests From Small Footprint LiDAR Data

Tropical forests ecosystems respond dynamically to climate variability and disturbances on time scales of minutes to millennia. To date, our knowledge of disturbance and recovery processes in tropical forests is derived almost exclusively from networks of forest inventory plots. These plots typically sample small areas (less than or equal to 1 ha) in conservation units that are protected from logging and fire. Amazon forests with frequent disturbances from human activity remain under-studied. Ongoing negotiations on REDD+ (Reducing Emissions from Deforestation and Forest Degradation plus enhancing forest carbon stocks) have placed additional emphasis on identifying degraded forests and quantifying changing carbon stocks in both degraded and intact tropical forests. We evaluated patterns of forest disturbance and recovery at four -1000 ha sites in the Brazilian Amazon using small footprint LiDAR data and coincident field measurements. Large area coverage with airborne LiDAR data in 2011-2012 included logged and unmanaged areas in Cotriguacu (Mato Grosso), Fiona do Jamari (Rondonia), and Floresta Estadual do Antimary (Acre), and unmanaged forest within Reserva Ducke (Amazonas). Logging infrastructure (skid trails, log decks, and roads) was identified using LiDAR returns from understory vegetation and validated based on field data. At each logged site, canopy gaps from logging activity and LiDAR metrics of canopy heights were used to quantify differences in forest structure between logged and unlogged areas. Contrasting patterns of harvesting operations and canopy damages at the three logged sites reflect different levels of pre-harvest planning (i.e., informal logging compared to state or national logging concessions), harvest intensity, and site conditions. Finally, we used multi-temporal LiDAR data from two sites, Reserva Ducke (2009, 2012) and Antimary (2010, 2011), to evaluate gap phase dynamics in unmanaged forest areas. The rates and patterns of canopy gap formation at these sites illustrate potential issues for separating logging damages from natural forest disturbances over longer time scales. Multi-temporal airborne LiDAR data and coincident field measurements provide complementary perspectives on disturbance and recovery processes in intact and degraded Amazon forests. Compared to forest inventory plots, the large size of each individual site permitted analyses of landscape-scale processes that would require extremely high investments to study using traditional forest inventory methods.

Morton, D. C.↗

NASA NTRS1981

The extension of a uniform canopy reflectance model to include row effects

The effect of row structure is assumed to be caused by the variation in density of vegetation across rows rather than to a profile in canopy height. The calculation of crop reflectance using vegetation density modulation across rows follows a parallel procedure to that for a uniform canopy. Predictions using the row model for wheat show that the effect of changes in sun to row azimuth are greatest in Landsat Band 5 (red band) and can result in underestimation of crop vigor.

Suits, G. H.↗

NASA NTRS1983

Extension of a uniform canopy reflectance model to include row effects

The reflectance model for a uniform crop canopy is extended to include the effects of crops planted in rows. The effect of row structure is assumed to be caused by the variation in density of vegetation across rows rather than to a profile in canopy height. The calculation of crop reflectance using vegetation density modulation across rows follows a parallel procedure to that for a uniform canopy. Predictions using the row model for wheat show that the effect of changes in sun to row azimuth are greatest in Landsat Band 5 (red band) and can result in underestimation of crop biomass.

Suits, G. H.↗

NASA NTRS1999

Landscape-Scale Canopy Complexity in and Near Braulio Carillo National Park, Costa Rica

Using medium-large footprint lidar sampling of approximately 500 square km of Costa Rica, we assessed the vertical and horizontal complexity of a forest-dominated tropical landscape. As expected, vertical extents of structure and canopy heights estimated from lidar waveforms were smaller in high elevation forests than in forests at lower elevations. In areas of the park and long-protected areas of La Selva Biological Station, forests typically had more consistent ratios of median height to total height than areas with other types of recent land use. Areas outside the park exhibited both stronger and weaker spatial correlations in canopy properties than most areas within the park. We also simulated the effects of these differences on data products gridded from lidar transects, like those produced by the Vegetation Canopy Lidar (VCL) Mission.

Knox, Robert G.↗

NASA NTRS2013

Extracting Tree Height from Repeat-Pass PolInSAR Data : Experiments with JPL and ESA Airborne Systems

In this paper we present our latest developments and experiments with the random-motion-over-ground (RMoG) model used to extract canopy height and other important forest parameters from repeat-pass polarimetricinterferometric SAR (Pol-InSAR) data. More specifically, we summarize the key features of the RMoG model in contrast with the random-volume-over-ground (RVoG) model, describe in detail a possible inversion scheme for the RMoG model and illustrate the results of the RMoG inversion using airborne data collected by the Jet Propulsion Laboratory (JPL) and the European Space Agency (ESA).

Pol-InSAR↗

NASA NTRS2012

The Algorithm Theoretical Basis Document for the Derivation of Range and Range Distributions from Laser Pulse Waveform Analysis for Surface Elevations, Roughness, Slope, and Vegetation Heights

The primary purpose of the GLAS instrument is to detect ice elevation changes over time which are used to derive changes in ice volume. Other objectives include measuring sea ice freeboard, ocean and land surface elevation, surface roughness, and canopy heights over land. This Algorithm Theoretical Basis Document (ATBD) describes the theory and implementation behind the algorithms used to produce the level 1B products for waveform parameters and global elevation and the level 2 products that are specific to ice sheet, sea ice, land, and ocean elevations respectively. These output products, are defined in detail along with the associated quality, and the constraints, and assumptions used to derive them.

Brenner, Anita C.↗

NASA NTRS2023

Invasion in the Niger Delta: Remote Sensing of Mangrove Conversion to Invasive Nypa fruticans from 2015-2020

Invasive species are a leading threat to biodiversity worldwide. Nypa palm ( Nypa fruticans ) has emerged as the predominant invasive species in the Niger Delta region of Nigeria. While endemic mangroves have high rates of carbon sequestration, stabilize coastlines, and protect biodiversity, Nypa does not provide these services outside its native region of Southeast Asia. Oil exploration and urbanization in this region also exacerbates mangrove loss and Nypa spread. As Nypa is difficult to distinguish from endemic mangrove species in remotely sensed data, estimates of mangrove and ecosystem services losses in Nigeria are highly uncertain. Here, we analyze multisensor satellite data with machine learning to quantify the rapid expansion of Nypa from 2015-2020 in Nigeria. Using Landsat imagery and random forest classification, we quantify total potential Nypa extent in Nigeria in 2019. We then produced a Nypa extent map using iterative combinations of Sentinel-1 SAR, Sentinel-2 MSI, and ALOS PALSAR. Random forest classifications using SAR data from ALOS and Sentinel-1 were best suited for mapping Nypa extent with similar accuracies (78% and 75% respectively). Based on data availability and accuracy, we focused our change analysis on Sentinel-1 SAR. Our results show ~28,000 ha of mangroves were converted to Nypa in Nigeria by 2020 and covered a larger extent than endemic mangroves, compounding the effect of the existing degradation and deforestation in the region. We also compared forest height and complexity estimates from GEDI (Global Ecosystem Dynamics Investigation) LiDAR to further distinguish between endemic mangroves and Nypa in three dimensions. Nypa structural variability, measured by top-of-canopy height, vegetation cover, plant area index, and foliage height diversity, was lower than that of mangroves. At current rates of Nypa expansion, the entire area of study would be invaded by Nypa by 2028, with potentially detrimental consequences to the ecosystem services provided by mangroves.

GEE↗

NASA NTRS2014

An Efficient, Multi-Layered Crown Delineation Algorithm for Mapping Individual Tree Structure Across Multiple Ecosystems

Deriving individual tree information from discrete return, small footprint LiDAR data may improve forest above ground biomass estimates, and provide tree-level information that is important in many ecological studies. Several crown delineation algorithms have been developed to extract individual tree information from LiDAR point clouds or rasterized canopy height models (CHM), but many of these algorithms have difficulty discriminating between overlapping crowns, and also may fail to detect understory trees. Our approach uses a watershed based delineation of a CHM, which is subsequently refined using the LiDAR point cloud. Individual tree detection was validated with stem mapped field data from the Smithsonian Environmental Research Center (SERC), Maryland, and on a plot and stand level through comparisons of stem density and basal area to delineated metrics at both SERC and a study area in the Sierra Nevada, California. For individual tree detection, the algorithm correctly identified 70% of dominant trees, 58% of co-dominant trees, 35% of intermediate trees and 21% of suppressed trees at SERC. The algorithm had difficulty distinguishing between crowns of small, dense understory trees of approximately the same height. Delineated crown volume alone explained 53% and 84% of the variability in basal area at the SERC and Sierra Nevada sites, respectively. The algorithm produced crown area distributions comparable to diameter at breast height (DBH) size class distributions observed in the field in both study sites. The algorithm detected understory crowns better in the conifer-dominated Sierra Nevada site than in the closed-canopy deciduous site in Maryland. The ability for the algorithm to reproduce both accurate tree size distributions and individual crown geometries in two dissimilar and complex forests suggests great promise for applicability to a wide range of forest systems.

LiDAR↗