Mapping individual trees from airborne multi-sensor imagery

Airborne multi-sensor imaging is increasingly used to examine vegetation properties. The advantage of using multiple types of sensor is that each detects a different feature of the vegetation, so that collectively they provide a detailed understanding of the ecological pattern. Specifically, Light Detection And Ranging (LiDAR) devices produce detailed point clouds of where laser pulses have been backscattered from surfaces, giving information on vegetation structure; hyperspectral sensors measure reflectances within narrow wavebands, providing spectrally detailed information about the optical properties of targets; while aerial photographs provide high spatial-resolution imagery so that they can provide more feature details which cannot be identified from hyperspectral or LiDAR intensity images. Using a combination of these sensors, effective techniques can be developed for mapping species and inferring leaf physiological processes at ITC-level. Although multi-sensor approaches have revolutionised ecological research, their application in mapping individual tree crowns is limited by two major technical issues: (a) Multi-sensor imaging requires all images taken from different sensors to be co-aligned, but different sensor characteristics result in scale, rotation or translation mismatches between the images, making correction a pre-requisite of individual tree crown mapping; (b) reconstructing individual tree crowns from unstructured raw data space requires an accurate tree delineation algorithm. This thesis develops a schematic way to resolve these technical issues using the-state-of-the-art computer vision algorithms. A variational method, called NGF-Curv, was developed to co-align hyperspectral imagery, LiDAR and aerial photographs.NGF-Curv algorithm can deal with very complex topographic and lens distortions efficiently, thus improving the accuracy of co-alignment compared to established image registration methods for airborne data. A graph cut method, named MCNCP-RNC was developed to reconstruct individual tree crowns from fully integrated multi-sensor imagery. MCNCP-RNC is not influenced by interpolation artefacts because it detects trees in 3D, and it detects individual tree crowns using both hyperspectral imagery and LiDAR. Based on these algorithms, we developed a new workflow to detect species at pixel and ITC levels in a temperate deciduous forest in the UK. In addition, we modified the workflow to monitor physiological responses of two oak species with respect to environmental gradients in a Mediterranean woodland in Spain. The results show that our scheme can detect individual tree crowns, find species and monitor physiological responses of canopy leaves

Airborne and Terrestrial Laser Scanning Data for the Assessment of Standing and Lying Deadwood: Current Situation and New Perspectives

LiDAR technology is finding uses in the forest sector, not only for surveys in producing forests but also as a tool to gain a deeper understanding of the importance of the three-dimensional component of forest environments. Developments of platforms and sensors in the last decades have highlighted the capacity of this technology to catch relevant details, even at finer scales. This drives its usage towards more ecological topics and applications for forest management. In recent years, nature protection policies have been focusing on deadwood as a key element for the health of forest ecosystems and wide-scale assessments are necessary for the planning process on a landscape scale. Initial studies showed promising results in the identification of bigger deadwood components (e.g., snags, logs, stumps), employing data not specifically collected for the purpose. Nevertheless, many efforts should still be made to transfer the available methodologies to an operational level. Newly available platforms (e.g., Mobile Laser Scanner) and sensors (e.g., Multispectral Laser Scanner) might provide new opportunities for this field of study in the near future

Assessing the role of EO in biodiversity monitoring: options for integrating in-situ observations with EO within the context of the EBONE concept

The European Biodiversity Observation Network (EBONE) is a European contribution on terrestrial monitoring to GEO BON, the Group on Earth Observations Biodiversity Observation Network. EBONE’s aims are to develop a system of biodiversity observation at regional, national and European levels by assessing existing approaches in terms of their validity and applicability starting in Europe, then expanding to regions in Africa. The objective of EBONE is to deliver: 1. A sound scientific basis for the production of statistical estimates of stock and change of key indicators; 2. The development of a system for estimating past changes and forecasting and testing policy options and management strategies for threatened ecosystems and species; 3. A proposal for a cost-effective biodiversity monitoring system. There is a consensus that Earth Observation (EO) has a role to play in monitoring biodiversity. With its capacity to observe detailed spatial patterns and variability across large areas at regular intervals, our instinct suggests that EO could deliver the type of spatial and temporal coverage that is beyond reach with in-situ efforts. Furthermore, when considering the emerging networks of in-situ observations, the prospect of enhancing the quality of the information whilst reducing cost through integration is compelling. This report gives a realistic assessment of the role of EO in biodiversity monitoring and the options for integrating in-situ observations with EO within the context of the EBONE concept (cfr. EBONE-ID1.4). The assessment is mainly based on a set of targeted pilot studies. Building on this assessment, the report then presents a series of recommendations on the best options for using EO in an effective, consistent and sustainable biodiversity monitoring scheme. The issues that we faced were many: 1. Integration can be interpreted in different ways. One possible interpretation is: the combined use of independent data sets to deliver a different but improved data set; another is: the use of one data set to complement another dataset. 2. The targeted improvement will vary with stakeholder group: some will seek for more efficiency, others for more reliable estimates (accuracy and/or precision); others for more detail in space and/or time or more of everything. 3. Integration requires a link between the datasets (EO and in-situ). The strength of the link between reflected electromagnetic radiation and the habitats and their biodiversity observed in-situ is function of many variables, for example: the spatial scale of the observations; timing of the observations; the adopted nomenclature for classification; the complexity of the landscape in terms of composition, spatial structure and the physical environment; the habitat and land cover types under consideration. 4. The type of the EO data available varies (function of e.g. budget, size and location of region, cloudiness, national and/or international investment in airborne campaigns or space technology) which determines its capability to deliver the required output. EO and in-situ could be combined in different ways, depending on the type of integration we wanted to achieve and the targeted improvement. We aimed for an improvement in accuracy (i.e. the reduction in error of our indicator estimate calculated for an environmental zone). Furthermore, EO would also provide the spatial patterns for correlated in-situ data. EBONE in its initial development, focused on three main indicators covering: (i) the extent and change of habitats of European interest in the context of a general habitat assessment; (ii) abundance and distribution of selected species (birds, butterflies and plants); and (iii) fragmentation of natural and semi-natural areas. For habitat extent, we decided that it did not matter how in-situ was integrated with EO as long as we could demonstrate that acceptable accuracies could be achieved and the precision could consistently be improved. The nomenclature used to map habitats in-situ was the General Habitat Classification. We considered the following options where the EO and in-situ play different roles: using in-situ samples to re-calibrate a habitat map independently derived from EO; improving the accuracy of in-situ sampled habitat statistics, by post-stratification with correlated EO data; and using in-situ samples to train the classification of EO data into habitat types where the EO data delivers full coverage or a larger number of samples. For some of the above cases we also considered the impact that the sampling strategy employed to deliver the samples would have on the accuracy and precision achieved. Restricted access to European wide species data prevented work on the indicator ‘abundance and distribution of species’. With respect to the indicator ‘fragmentation’, we investigated ways of delivering EO derived measures of habitat patterns that are meaningful to sampled in-situ observations

Integration of LIDAR and IFSAR for mapping

LiDAR and IfSAR data is now widely used for a number of applications, particularly those needing a digital elevation model. The data is often complementary to other data such as aerial imagery and high resolution satellite data. This paper will review the current data sources and the products and then look at the ways in which the data can be integrated for particular applications. The main platforms for LiDAR are either helicopter or fixed wing aircraft, often operating at low altitudes, a digital camera is frequently included on the platform, there is an interest in using other sensors such as 3 line cameras of hyperspectral scanners. IfSAR is used from satellite platforms, or from aircraft, the latter are more compatible with LiDAR for integration. The paper will examine the advantages and disadvantages of LiDAR and IfSAR for DEM generation and discuss the issues which still need to be dealt with. Examples of applications will be given and particularly those involving the integration of different types of data. Examples will be given from various sources and future trends examined

Species-specific forest variable estimation using non-parametric modeling of multi-spectral photogrammetric point cloud data

The recent development in software for automatic photogrammetric processing of multispectral aerial imagery, and the growing nation-wide availability of Digital Elevation Model (DEM) data, are about to revolutionize data capture for forest management planning in Scandinavia. Using only already available aerial imagery and ALS-assessed DEM data, raster estimates of the forest variables mean tree height, basal area, total stem volume, and species-specific stem volumes were produced and evaluated. The study was conducted at a coniferous hemi-boreal test site in southern Sweden (lat. 58° N, long. 13° E). Digital aerial images from the Zeiss/Intergraph Digital Mapping Camera system were used to produce 3D point-cloud data with spectral information. Metrics were calculated for 696 field plots (10 m radius) from point-cloud data and used in k-MSN to estimate forest variables. For these stands, the tree height ranged from 1.4 to 33.0 m (18.1 m mean), stem volume from 0 to 829 m3 ha-1 (249 m3 ha-1 mean) and basal area from 0 to 62.2 m2 ha-1 (26.1 m2 ha-1 mean), with mean stand size of 2.8 ha. Estimates made using digital aerial images corresponding to the standard acquisition of the Swedish National Land Survey (Lantmäteriet) showed RMSEs (in percent of the surveyed stand mean) of 7.5% for tree height, 11.4% for basal area, 13.2% for total stem volume, 90.6% for pine stem volume, 26.4 for spruce stem volume, and 72.6% for deciduous stem volume. The results imply that photogrammetric matching of digital aerial images has significant potential for operational use in forestry

Unmanned Aerial Vehicles (UAVs) in environmental biology: A Review

Acquiring information about the environment is a key step during each study in the field of environmental biology at different levels, from an individual species to community and biome. However, obtaining information about the environment is frequently difficult because of, for example, the phenological timing, spatial distribution of a species or limited accessibility of a particular area for the field survey. Moreover, remote sensing technology, which enables the observation of the Earth’s surface and is currently very common in environmental research, has many limitations such as insufficient spatial, spectral and temporal resolution and a high cost of data acquisition. Since the 1990s, researchers have been exploring the potential of different types of unmanned aerial vehicles (UAVs) for monitoring Earth’s surface. The present study reviews recent scientific literature dealing with the use of UAV in environmental biology. Amongst numerous papers, short communications and conference abstracts, we selected 110 original studies of how UAVs can be used in environmental biology and which organisms can be studied in this manner. Most of these studies concerned the use of UAV to measure the vegetation parameters such as crown height, volume, number of individuals (14 studies) and quantification of the spatio-temporal dynamics of vegetation changes (12 studies). UAVs were also frequently applied to count birds and mammals, especially those living in the water. Generally, the analytical part of the present study was divided into following sections: (1) detecting, assessing and predicting threats on vegetation, (2) measuring the biophysical parameters of vegetation, (3) quantifying the dynamics of changes in plants and habitats and (4) population and behaviour studies of animals. At the end, we also synthesised all the information showing, amongst others, the advances in environmental biology because of UAV application. Considering that 33% of studies found and included in this review were published in 2017 and 2018, it is expected that the number and variety of applications of UAVs in environmental biology will increase in the future

Gradients in urban material composition: A new concept to map cities with spaceborne imaging spectroscopy data

To understand processes in urban environments, such as urban energy fluxes or surface temperature patterns, it is important to map urban surface materials. Airborne imaging spectroscopy data have been successfully used to identify urban surface materials mainly based on unmixing algorithms. Upcoming spaceborne Imaging Spectrometers (IS), such as the Environmental Mapping and Analysis Program (EnMAP), will reduce the time and cost-critical limitations of airborne systems for Earth Observation (EO). However, the spatial resolution of all operated and planned IS in space will not be higher than 20 to 30 m and, thus, the detection of pure Endmember (EM) candidates in urban areas, a requirement for spectral unmixing, is very limited. Gradient analysis could be an alternative method for retrieving urban surface material compositions in pixels from spaceborne IS. The gradient concept is well known in ecology to identify plant species assemblages formed by similar environmental conditions but has never been tested for urban materials. However, urban areas also contain neighbourhoods with similar physical, compositional and structural characteristics. Based on this assumption, this study investigated (1) whether cover fractions of surface materials change gradually in urban areas and (2) whether these gradients can be adequately mapped and interpreted using imaging spectroscopy data (e.g. EnMAP) with 30 m spatial resolution. Similarities of material compositions were analysed on the basis of 153 systematically distributed samples on a detailed surface material map using Detrended Correspondence Analysis (DCA). Determined gradient scores for the first two gradients were regressed against the corresponding mean reflectance of simulated EnMAP spectra using Partial Least Square regression models. Results show strong correlations with R2 = 0.85 and R2 = 0.71 and an RMSE of 0.24 and 0.21 for the first and second axis, respectively. The subsequent mapping of the first gradient reveals patterns that correspond to the transition from predominantly vegetation classes to the dominance of artificial materials. Patterns resulting from the second gradient are associated with surface material compositions that are related to finer structural differences in urban structures. The composite gradient map shows patterns of common surface material compositions that can be related to urban land use classes such as Urban Structure Types (UST). By linking the knowledge of typical material compositions with urban structures, gradient analysis seems to be a powerful tool to map characteristic material compositions in 30 m imaging spectroscopy data of urban areas