scholarly journals Hyperspectral Characteristics of an Individual Leaf of Wheat Grown under Nitrogen Gradient

Plants ◽  
2021 ◽  
Vol 10 (11) ◽  
pp. 2291
Author(s):  
Jae Gyeong Jung ◽  
Ki Eun Song ◽  
Sun Hee Hong ◽  
Sang In Shim
Keyword(s):  
Hyperspectral Image ◽  
Image Acquisition ◽  
Flag Leaf ◽  
Vegetation Indices ◽  
Region Of Interest ◽  
Coefficient Of Determination ◽  
Imaging Data ◽  
Technical Errors ◽  
The Status ◽  
Fertilization Level

Since the application of hyperspectral technology to agriculture, many scientists have been conducting studies to apply the technology in crop diagnosis. However, due to the properties of optical devices, the reflectances obtained according to the image acquisition conditions are different. Nevertheless, there is no optimized method for minimizing such technical errors in applying hyperspectral imaging. Therefore, this study was conducted to find the appropriate image acquisition conditions that reflect the growth status of wheat grown under different nitrogen fertilization regimes. The experiment plots were comprised of six plots with various N application levels of 145.6 kg N ha−1 (N1), 109.2 kg N ha−1 (N2), 91.0 kg N ha−1 (N3), 72.8 kg N ha−1 (N4), 54.6 kg N ha−1 (N5), and 36.4 kg N ha−1 (N6). Hyperspectral image acquisitions were performed at different shooting angles of 105° and 125° from the surface, and spike, flag leaf, and the second uppermost leaf were divided into five parts from apex to base when analyzing the images. The growth analysis conducted at heading showed that the N6 was 85.6% in the plant height, 44.1% in LAI, and 64.9% in SPAD as compared to N1. The nitrogen content in the leaf decreased by 55.2% compared to N1 and the quantity was 44.9% in N6 compared to N1. Based on the vegetation indices obtained from hyperspectral reflectances at the heading stage, the spike was not suitable for analysis. In the case of the flag leaf and the 2nd uppermost leaf, the vegetation indices from spectral data taken at 105 degrees were more appropriate for acquiring imaging data by clearly dividing the effects of fertilization level. The results of the regional variation in a leaf showed that the region of interest (ROI), which is close to the apex of the flag leaf and the base of the second uppermost leaf, has a high coefficient of determination between the fertilization levels and the vegetation indices, which effectively reflected the status of wheat.

scholarly journals OCTAVVS: A Graphical Toolbox for High-Throughput Preprocessing and Analysis of Vibrational Spectroscopy Imaging Data

2020 ◽  
Vol 3 (2) ◽  
pp. 34
Author(s):  
Carl Troein ◽  
Syahril Siregar ◽  
Michiel Op De Beeck ◽  
Carsten Peterson ◽  
Anders Tunlid ◽  
...  
Keyword(s):  
Vibrational Spectroscopy ◽  
Hyperspectral Image ◽  
Atmospheric Correction ◽  
Region Of Interest ◽  
Mie Scattering ◽  
Multivariate Curve Resolution ◽  
Imaging Data ◽  
Large Sets ◽  
Heterogeneous Samples ◽  
Als Algorithm

Modern vibrational spectroscopy techniques enable the rapid collection of thousands of spectra in a single hyperspectral image, allowing researchers to study spatially heterogeneous samples at micrometer resolution. A number of algorithms have been developed to correct for effects such as atmospheric absorption, light scattering by cellular structures and varying baseline levels. After preprocessing, spectra are commonly decomposed and clustered to reveal informative patterns and subtle spectral changes. Several of these steps are slow, labor-intensive and require programming skills to make use of published algorithms and code. We here present a free and platform-independent graphical toolbox that allows rapid preprocessing of large sets of spectroscopic images, including atmospheric correction and a new algorithm for resonant Mie scattering with improved speed. The software also includes modules for decomposition into constituent spectra using the popular Multivariate Curve Resolution–Alternating Least Squares (MCR-ALS) algorithm, augmented by region-of-interest selection, as well as clustering and cluster annotation.

scholarly journals OCTAVVS: A graphical toolbox for high-throughput preprocessing and analysis of vibrational spectroscopy imaging data

2019 ◽  
Author(s):  
Carl Troein ◽  
Syahril Siregar ◽  
Michiel Op De Beeck ◽  
Carsten Peterson ◽  
Anders Tunlid ◽  
...  
Keyword(s):  
Vibrational Spectroscopy ◽  
Hyperspectral Image ◽  
Atmospheric Correction ◽  
Region Of Interest ◽  
Mie Scattering ◽  
Imaging Data ◽  
Large Sets ◽  
Heterogeneous Samples ◽  
Als Algorithm ◽  
Rapid Processing

AbstractModern vibrational spectroscopy techniques enable rapid collection of thousands of spectra in a single hyperspectral image, allowing researchers to resolve spatially heterogeneous samples down to a resolution of a few μm. A number of algorithms have been developed to correct for effects such as atmospheric absorption, light scattering by cellular structures and varying baseline levels. Following such preprocessing, spectra are commonly decomposed and clustered to reveal informative patterns and subtle spectral changes. Several of these steps are slow, labor-intensive and require programming skills to make use of published algorithms and code. We here present a free and platform-independent graphical toolbox that allows rapid processing of large sets of spectroscopic images, including atmospheric correction and an algorithm for resonant Mie scattering with improved speed and stability. The software includes modules for decomposition into constituent spectra using the popular MCR-ALS algorithm, augmented by region-of-interest selection, as well as clustering and cluster annotation.

scholarly journals Estimation of Above-Ground Mangrove Biomass Using Landsat-8 Data- Derived Vegetation Indices: A Case Study in Quang Ninh Province, Vietnam

2021 ◽  
pp. 506-525
Author(s):  
Hai-Hoa Nguyen ◽  
Huy Duc Vu ◽  
Achim Röder
Keyword(s):  
Vegetation Indices ◽  
Landsat 8 ◽  
Mangrove Forests ◽  
Estimation Model ◽  
The Status ◽  
Good Potential ◽  
The Mean ◽  
Accuracy Assessments ◽  
Quang Ninh

This study aimed to map the status of mangrove forests over the coasts of Hai Ha District and Mong Cai City in Quang Ninh Province by using 2019 Landsat-8 imagery. It then developed the AGB estimation model of mangrove forests based on the AGB estimation-derived plots inventory and vegetation indices-derived from Landsat-8 data. As results, there were five land covers identified, including mangrove forests, other vegetation, wetlands, built-up, and water, with the overall accuracy assessments of 80.0% and Kappa coefficient of 0.74. The total extent of mangrove forests was estimated at 4291.2 ha. The best AGB estimation model that was selected to estimate the AGB and AGC of mangrove forests for the whole coasts of Hai Ha District and Mong Cai City is AGB= 30.38 + 911.95*SAVI (R2=0.924, PValue <0.001). The model validation assessment has confirmed that the selected AGB model can be applied to Hai Ha and Mong Cai coasts with the mean difference between AGB observed and AGB predicted at 16.0 %. This satisfactory AGB model also suggests a good potential for AGB and AGC mapping, which offer the carbon trading market in the study site. As the AGB model selected, the total AGB and AGC of mangrove forests were estimated at about 14,600,000 tons and 6,868,076 tons with a range of from 94.0 - 432.0 tons ha-1, from 44.2 - 203.02 tons ha-1, respectively. It also suggests that the newly-developed AGB model of mangrove forests can be used to estimate AGC stocks and carbon sequestration of mangrove forests for C-PFES in over the coasts of Hai Ha District and Mong Cai City, which is a very importantly financial source for mangrove forest managers, in particular for local mangrove protectors.

scholarly journals Comparison of spectral selection methods in the development of classification models from visible near infrared hyperspectral imaging data

2019 ◽  
Author(s):  
Aoife Gowen ◽  
Jun-Li Xu ◽  
Ana Herrero-Langreo
Keyword(s):  
Hyperspectral Imaging ◽  
Near Infrared ◽  
Spatial Information ◽  
Hyperspectral Image ◽  
Imaging Spectroscopy ◽  
Model Performance ◽  
Data Sampling ◽  
Classification Models ◽  
Imaging Data ◽  
Selection Of

Applications of hyperspectral imaging (HSI) to the quantitative and qualitative measurement of samples have grown widely in recent years, due mainly to the improved performance and lower cost of imaging spectroscopy instrumentation. Data sampling is a crucial yet often overlooked step in hyperspectral image analysis, which impacts the subsequent results and their interpretation. In the selection of pixel spectra for the calibration of classification models, the spatial information in HSI data can be exploited. In this paper, a variety of sampling strategies for selection of pixel spectra are presented, exemplified through five case studies. The strategies are compared in terms of the proportion of global variability captured, practicality and predictive model performance. The use of variographic analysis as a guide to the spatial segmentation prior to sampling leads to the selection of representative subsets while reducing the variation in model performance parameters over repeated random selection.

scholarly journals Towards accurate and unbiased imaging-based differentiation of Parkinson’s disease, progressive supranuclear palsy and corticobasal syndrome

2020 ◽  
Vol 2 (1) ◽  
Author(s):  
Marta M Correia ◽  
Timothy Rittman ◽  
Christopher L Barnes ◽  
Ian T Coyle-Gilchrist ◽  
Boyd Ghosh ◽  
...  
Keyword(s):  
Magnetic Resonance Imaging ◽  
Magnetic Resonance ◽  
Principal Components Analysis ◽  
Principal Components ◽  
Cross Validation ◽  
Region Of Interest ◽  
Imaging Data ◽  
Resonance Imaging ◽  
Magnetic Resonance Imaging Data ◽  
Components Analysis

Abstract The early and accurate differential diagnosis of parkinsonian disorders is still a significant challenge for clinicians. In recent years, a number of studies have used magnetic resonance imaging data combined with machine learning and statistical classifiers to successfully differentiate between different forms of Parkinsonism. However, several questions and methodological issues remain, to minimize bias and artefact-driven classification. In this study, we compared different approaches for feature selection, as well as different magnetic resonance imaging modalities, with well-matched patient groups and tightly controlling for data quality issues related to patient motion. Our sample was drawn from a cohort of 69 healthy controls, and patients with idiopathic Parkinson’s disease (n = 35), progressive supranuclear palsy Richardson’s syndrome (n = 52) and corticobasal syndrome (n = 36). Participants underwent standardized T1-weighted and diffusion-weighted magnetic resonance imaging. Strict data quality control and group matching reduced the control and patient numbers to 43, 32, 33 and 26, respectively. We compared two different methods for feature selection and dimensionality reduction: whole-brain principal components analysis, and an anatomical region-of-interest based approach. In both cases, support vector machines were used to construct a statistical model for pairwise classification of healthy controls and patients. The accuracy of each model was estimated using a leave-two-out cross-validation approach, as well as an independent validation using a different set of subjects. Our cross-validation results suggest that using principal components analysis for feature extraction provides higher classification accuracies when compared to a region-of-interest based approach. However, the differences between the two feature extraction methods were significantly reduced when an independent sample was used for validation, suggesting that the principal components analysis approach may be more vulnerable to overfitting with cross-validation. Both T1-weighted and diffusion magnetic resonance imaging data could be used to successfully differentiate between subject groups, with neither modality outperforming the other across all pairwise comparisons in the cross-validation analysis. However, features obtained from diffusion magnetic resonance imaging data resulted in significantly higher classification accuracies when an independent validation cohort was used. Overall, our results support the use of statistical classification approaches for differential diagnosis of parkinsonian disorders. However, classification accuracy can be affected by group size, age, sex and movement artefacts. With appropriate controls and out-of-sample cross validation, diagnostic biomarker evaluation including magnetic resonance imaging based classifiers may be an important adjunct to clinical evaluation.

scholarly journals Estimation of Peanut Leaf Area Index from Unmanned Aerial Vehicle Multispectral Images

Sensors ◽  
2020 ◽  
Vol 20 (23) ◽  
pp. 6732
Author(s):  
Haixia Qi ◽  
Bingyu Zhu ◽  
Zeyu Wu ◽  
Yu Liang ◽  
Jianwen Li ◽  
...  
Keyword(s):  
Leaf Area Index ◽  
Leaf Area ◽  
Vegetation Index ◽  
Field Experiments ◽  
Predictive Accuracy ◽  
Vegetation Indices ◽  
Planting Density ◽  
Coefficient Of Determination ◽  
Multispectral Images ◽  
Area Index

Leaf area index (LAI) is used to predict crop yield, and unmanned aerial vehicles (UAVs) provide new ways to monitor LAI. In this study, we used a fixed-wing UAV with multispectral cameras for remote sensing monitoring. We conducted field experiments with two peanut varieties at different planting densities to estimate LAI from multispectral images and establish a high-precision LAI prediction model. We used eight vegetation indices (VIs) and developed simple regression and artificial neural network (BPN) models for LAI and spectral VIs. The empirical model was calibrated to estimate peanut LAI, and the best model was selected from the coefficient of determination and root mean square error. The red (660 nm) and near-infrared (790 nm) bands effectively predicted peanut LAI, and LAI increased with planting density. The predictive accuracy of the multiple regression model was higher than that of the single linear regression models, and the correlations between Modified Red-Edge Simple Ratio Index (MSR), Ratio Vegetation Index (RVI), Normalized Difference Vegetation Index (NDVI), and LAI were higher than the other indices. The combined VI BPN model was more accurate than the single VI BPN model, and the BPN model accuracy was higher. Planting density affects peanut LAI, and reflectance-based vegetation indices can help predict LAI.

scholarly journals Estimation of Carbon Fluxes from Eddy Covariance Data and Satellite-Derived Vegetation Indices in a Karst Grassland (Podgorski Kras, Slovenia)

2019 ◽  
Vol 11 (6) ◽  
pp. 649 ◽  
Author(s):  
Koffi Noumonvi ◽  
Mitja Ferlan ◽  
Klemen Eler ◽  
Giorgio Alberti ◽  
Alessandro Peressotti ◽  
...  
Keyword(s):  
Linear Relationship ◽  
Eddy Covariance ◽  
Vegetation Index ◽  
Gross Primary Production ◽  
Vegetation Indices ◽  
Information Criterion ◽  
Growing Season ◽  
Coefficient Of Determination ◽  
Regression Equations ◽  
Eddy Covariance Method

The Eddy Covariance method (EC) is widely used for measuring carbon (C) and energy fluxes at high frequency between the atmosphere and the ecosystem, but has some methodological limitations and a spatial restriction to an area, called a footprint. Remotely sensed information is usually used in combination with eddy covariance data in order to estimate C fluxes over larger areas. In fact, spectral vegetation indices derived from available satellite data can be combined with EC measurements to estimate C fluxes outside of the tower footprint. Following this approach, the present study aimed to model C fluxes for a karst grassland in Slovenia. Three types of model were considered: (1) a linear relationship between Net Ecosystem Exchange (NEE) or Gross Primary Production (GPP) and each vegetation index; (2) a linear relationship between GPP and the product of a vegetation index with PAR (Photosynthetically Active Radiation); and (3) a simplified LUE (Light Use-Efficiency) model assuming a constant LUE. We compared the performance of several vegetation indices derived from two remote platforms (Landsat and Proba-V) as predictors of NEE and GPP, based on three accuracy metrics, the coefficient of determination (R2), the Root Mean Square Error (RMSE) and the Akaike Information Criterion (AIC). Two types of aggregation of flux data were explored: midday average and daily average fluxes. The vapor pressure deficit (VPD) was used to separate the growing season into two phases, a wet and a dry phase, which were considered separately in the modelling process, in addition to the growing season as a whole. The results showed that NDVI is the best predictor of GPP and NEE during the wet phase, whereas water-related vegetation indices, namely LSWI and MNDWI, were the best predictors during the dry phase, both for midday and daily aggregates. Model 1 (linear relationship) was found to be the best in many cases. The best regression equations obtained were used to map GPP and NEE for the whole study area. Digital maps obtained can practically contribute, in a cost-effective way to the management of karst grasslands.

Upconversion applied for mid-IR hyperspectral image acquisition

2015 ◽  
Author(s):  
Peter Tidemand-Lichtenberg ◽  
Louis M. Kehlet ◽  
Nicolai H. Sanders ◽  
Jeppe S. Dam ◽  
Christian Pedersen
Keyword(s):  
Hyperspectral Image ◽  
Image Acquisition
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