Efficacy of multi-season Sentinel-2 imagery for compositional vegetation classification

Vegetation maps are essential tools for the conservation and management of landscapes as they contain essential information for informing conservation decisions. Traditionally, maps have been created using field-based approaches which, due to limitations in costs and time, restrict the size of the area for which they can be created and frequency at which they can be updated. With the increasing availability of satellite sensors providing multi-spectral imagery with high temporal frequency, new methods for efficient and accurate vegetation mapping have been developed. The objective of this study was to investigate to what extent multi-seasonal Sentinel-2 imagery can assist in mapping complex compositional classifications at fine spatial scales. We deliberately chose a challenging case study, namely a visually and structurally homogenous scrub vegetation (known as kwongan) of Western Australia. The classification scheme consists of 24 target classes and a random 60/40 split was used for model building and validation. We compared several multi-temporal (seasonal) feature sets, consisting of numerous combinations of spectral bands, vegetation indices as well as principal component and tasselled cap transformations, as input to four machine learning classifiers (Support Vector Machines; SVM, Nearest Neighbour; NN, Random Forests; RF, and Classification Trees; CT) to separate target classes. The results show that a multi-temporal feature set combining autumn and spring images sufficiently captured the phenological differences between the classes and produced the best results, with SVM (74%) and NN (72%) classifiers returning statistically superior results compared to RF (65%) and CT (50%). The SWIR spectral bands captured during spring, the greenness indices captured during spring and the tasselled cap transformations derived from the autumn image emerged as most informative, which suggests that ecological factors (e.g. shared species, patch dynamics) occurring at a sub-pixel level likely had the biggest impact on class confusion. However, despite these challenges, the results are auspicious and suggest that seasonal Sentinel-2 imagery has the potential to predict compositional vegetation classes with high accuracy. Further work is needed to determine whether these results are replicable in other vegetation types and regions

Exploring issues of balanced versus imbalanced samples in mapping grass community in the telperion reserve using high resolution images and selected machine learning algorithms

ABSTRACT Accurate vegetation mapping is essential for a number of reasons, one of which is for conservation purposes. The main objective of this research was to map different grass communities in the game reserve using RapidEye and Sentinel-2 MSI images and machine learning classifiers [support vector machine (SVM) and Random forest (RF)] to test the impacts of balanced and imbalance training data on the performance and the accuracy of Support Vector Machine and Random forest in mapping the grass communities and test the sensitivities of pixel resolution to balanced and imbalance training data in image classification. The imbalanced and balanced data sets were obtained through field data collection. The results show RF and SVM are producing a high overall accuracy for Sentinel-2 imagery for both the balanced and imbalanced data set. The RF classifier has yielded an overall accuracy of 79.45% and kappa of 74.38% and an overall accuracy of 76.19% and kappa of 73.21% using imbalanced and balanced training data respectively. The SVM classifier yielded an overall accuracy of 82.54% and kappa of 80.36% and an overall accuracy of 82.21% and a kappa of 78.33% using imbalanced and balanced training data respectively. For the RapidEye imagery, RF and SVM algorithm produced overall accuracy affected by a balanced data set leading to reduced accuracy. The RF algorithm had an overall accuracy that dropped by 6% (from 63.24% to 57.94%) while the SVM dropped by 7% (from 57.31% to 50.79%). The results thereby show that the imbalanced data set is a better option when looking at the image classification of vegetation species than the balanced data set. The study recommends the implementation of ways of handling misclassification among the different grass species to improve classification for future research. Further research can be carried out on other types of high resolution multispectral imagery using different advanced algorithms on different training size samples.EM201

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

Remote Sensing of Ecology, Biodiversity and Conservation: A Review from the Perspective of Remote Sensing Specialists

Remote sensing, the science of obtaining information via noncontact recording, has swept the fields of ecology, biodiversity and conservation (EBC). Several quality review papers have contributed to this field. However, these papers often discuss the issues from the standpoint of an ecologist or a biodiversity specialist. This review focuses on the spaceborne remote sensing of EBC from the perspective of remote sensing specialists, i.e., it is organized in the context of state-of-the-art remote sensing technology, including instruments and techniques. Herein, the instruments to be discussed consist of high spatial resolution, hyperspectral, thermal infrared, small-satellite constellation, and LIDAR sensors; and the techniques refer to image classification, vegetation index (VI), inversion algorithm, data fusion, and the integration of remote sensing (RS) and geographic information system (GIS)

Remote Sensing for Monitoring the Mountaintop Mining Landscape: Applications for Land Cover Mapping at the Individual Mine Complex Scale

The aim of this dissertation was to investigate the potential for mapping land cover associated with mountaintop mining in Southern West Virginia using high spatial resolution aerial- and satellite-based multispectral imagery, as well as light detection and ranging (LiDAR) elevation data and terrain derivatives. The following research themes were explored: comparing aerial- and satellite-based imagery, combining data sets of multiple dates and types, incorporating measures of texture, using nonparametric, machine learning classification algorithms, and employing a geographical object-based image analysis (GEOBIA) framework. This research is presented as four interrelated manuscripts.;In a comparison of aerial National Agriculture Imagery Program (NAIP) orthophotography and satellite-based RapidEye data, the aerial imagery was found to provide statistically less accurate classifications of land cover. These lower accuracies are most likely due to inconsistent viewing geometry and radiometric normalization associated with the aerial imagery. Nevertheless, NAIP orthophotography has many characteristics that make it useful for surface mine mapping and monitoring, including its availability for multiple years, a general lack of cloud cover, contiguous coverage of large areas, ease of availability, and low cost. The lower accuracies of the NAIP classifications were somewhat remediated by decreasing the spatial resolution and reducing the number of classes mapped.;Combining LiDAR with multispectral imagery statistically improved the classification of mining and mine reclamation land cover in comparison to only using multispectral data for both pixel-based and GEOBIA classification. This suggests that the reduced spectral resolution of high spatial resolution data can be combated by incorporating data from another sensor.;Generally, the support vector machines (SVM) algorithm provided higher classification accuracies in comparison to random forests (RF) and boosted classification and regression trees (CART) for both pixel-based and GEOBIA classification. It also outperformed k-nearest neighbor, the algorithm commonly used for GEOBIA classification. However, optimizing user-defined parameters for the SVM algorithm tends to be more complex in comparison to the other algorithms. In particular, RF has fewer parameters, and the program seems robust regarding the parameter settings. RF also offers measures to assess model performance, such as estimates of variable importance and overall accuracy.;Textural measures were found to be of marginal value for pixel-based classification. For GEOBIA, neither measures of texture nor object-specific geometry improved the classification accuracy. Notably, the incorporation of additional information from LiDAR provided a greater improvement in classification accuracy then deriving complex textural and geometric measures.;Pre- and post-mining terrain data classified using GEOBIA and machine learning algorithms resulted in significantly more accurate differentiation of mine-reclaimed and non-mining grasslands than was possible with spectral data. The combination of pre- and post-mining terrain data or just pre-mining data generally outperformed post-mining data. Elevation change data were shown to be of particular value, as were terrain shape parameters. GEOBIA was a valuable tool for combining data collected using different sensors and gridded at variable cell sizes, and machine learning algorithms were particularly useful for incorporating the ancillary data derived from the digital elevation models (DEMs), since these most likely would not have met the basic assumptions of multivariate normality required for parametric classifiers.;Collectively, this research suggests that high spatial resolution remotely sensed data are valuable for mapping and monitoring surface mining and mine reclamation, especially when elevation and spectral data are combined. Machine learning algorithms and GEOBIA are useful for integrating such diverse data

Assessing the potential of remote sensing to discriminate invasive Seriphium plumosum from grass

The usefulness of remote sensing to discriminate Seriphium plumosum from grass using a field spectrometer data was investigated in this study. Analysis focused on wavelength regions that showed potential of discriminating S. plumosum from grass which were determined from global pair spectral comparison between S. plumosum and grass. Assessment of reflectance differences done at individual and plot levels using original spectra and spectra simulated based on bands of Landsat and SPOT 5 images. The simulations were done to investigate the possibility of extending field based information into airborne and spaceborne remote sensing techniques. Results showed reflectance spectra of S. plumosum and grass to be relatively comparable. Comparisons at all levels of analysis using original spectra did not show noteworthy reflectance difference in all regions used in the analysis. Similarly, simulated spectra did not show significant differences. The results therefore did not appear to encourage the potential of upscaling the application to airborne and spaceborne remote sensing techniques. There were, however, some shortcomings that made it difficult to draw conclusive remarks on whether the plant can be differentiated from grass. These included, firstly, not all species were in the same phenology. Secondly, spectral measurements were not necessarily taken in an ideal scenario of optimal sunny conditions. It is therefore advised that a similar study be carried out that will address the shortcomings of this study. Furthermore, studies on the biochemical composition of both S. plumosum and grass species are needed, since they explain spectral properties of plants

Mapping grass nutrient phosphorus (P) and sodium (NA) across different grass communities using Sentinel-2 data

A research report submitted to the Faculty of Science, University of the Witwatersrand, Johannesburg, in partial fulfillment of the requirement for the degree of Master of Science (Environmental Sciences) at the School of Geography, Archaeology & Environmental Studies March 2017Accurate estimates and mapping of grass quality is important for effective rangeland management. The purpose of this research was to map different grass species as well as nutrient Phosphorus (P) and Sodium (Na) concentration across grass communities using Sentinel-2 imagery in Telperion game reserve. The main objectives of the study were to: map the most common grass communities at the Telperion game reserve using Sentinel-2 imagery using artificial neural network (ANN) classifier and to evaluate the use of Sentinel-2 (MSI) in quantifying grass phosphorus and sodium concentration across different grass communities. Grass phosphorus and sodium concentrations were estimated using Random Forest (RF) regression algorithm, normalized difference vegetation index (NDVI) and the simple ratios (SR) which were calculated from all two possible band combination of Sentinel-2 data. Results obtained demonstrated woody vegetation as the dominant vegetation and Aristida congesta as the most common grass species. The overall classification accuracy = 81%; kappa =0.78 and error rate=0.18 was achieved using the ANN classifier. Regression model for leaf phosphorus concentration prediction both NDVI and SR data sets yielded similar results (R2 =0.363; RMSE=0.017%) and (R2 =0.36 2; RMSE=0.0174%). Regression model for leaf sodium using NDVI and SR data sets yielded dissimilar results (R2 =0.23; RMSE=16.74 mg/kg) and (R2 =0.15; RMSE =34.08 mg/kg). The overall outcomes of this study demonstrate the capability of Sentinel 2 imagery in mapping vegetation quality (phosphorus and sodium) and quantity. The study recommends the mapping of grass communities and both phosphorus and sodium concentrations across different seasons to fully understand the distribution of different species across the game reserve as well as variations in foliar concentration of the elements. Such information will guide the reserve managers on resource use and conservation strategies to implement within the reserve. Furthermore, the information will enable conservation managers to understand wildlife distribution and feeding patterns. This will allow integration of effective conservation strategies into decisions on stocking capacity.MT 201

Tree species classification from airborne hyperspectral and LiDAR data using 3D convolutional neural networks

During the last two decades, forest monitoring and inventory systems have moved from field surveys to remote sensing-based methods. These methods tend to focus on economically significant components of forests, thus leaving out many factors vital for forest biodiversity, such as the occurrence of species with low economical but high ecological values. Airborne hyperspectral imagery has shown significant potential for tree species classification, but the most common analysis methods, such as random forest and support vector machines, require manual feature engineering in order to utilize both spatial and spectral features, whereas deep learning methods are able to extract these features from the raw data. Our research focused on the classification of the major tree species Scots pine, Norway spruce and birch, together with an ecologically valuable keystone species, European aspen, which has a sparse and scattered occurrence in boreal forests. We compared the performance of three-dimensional convolutional neural networks (3D-CNNs) with the support vector machine, random forest, gradient boosting machine and artificial neural network in individual tree species classification from hyperspectral data with high spatial and spectral resolution. We collected hyperspectral and LiDAR data along with extensive ground reference data measurements of tree species from the 83 km2 study area located in the southern boreal zone in Finland. A LiDAR-derived canopy height model was used to match ground reference data to aerial imagery. The best performing 3D-CNN, utilizing 4 m image patches, was able to achieve an F1-score of 0.91 for aspen, an overall F1-score of 0.86 and an overall accuracy of 87%, while the lowest performing 3D-CNN utilizing 10 m image patches achieved an F1-score of 0.83 and an accuracy of 85%. In comparison, the support-vector machine achieved an F1-score of 0.82 and an accuracy of 82.4% and the artificial neural network achieved an F1-score of 0.82 and an accuracy of 81.7%. Compared to the reference models, 3D-CNNs were more efficient in distinguishing coniferous species from each other, with a concurrent high accuracy for aspen classification. Deep neural networks, being black box models, hide the information about how they reach their decision. We used both occlusion and saliency maps to interpret our models. Finally, we used the best performing 3D-CNN to produce a wall-to-wall tree species map for the full study area that can later be used as a reference prediction in, for instance, tree species mapping from multispectral satellite images. The improved tree species classification demonstrated by our study can benefit both sustainable forestry and biodiversity conservation.peerReviewe