Hyperspectral imaging technology combined with deep forest model to identify frost-damaged rice seeds

A new comprehensive quantitative index for the assessment of essential amino acid quality in beef using Vis-NIR hyperspectral imaging combined with LSTM

The quality of beef is usually predicted by measuring a single index rather than a comprehensive index. To precisely determine the essential amino acid (EAA) contents in 360 beef samples, the feasibility of optimized spectral detection techniques based on the comprehensive EAA index (CEI) and comprehensive weight index (CWI) constructed by factor analysis was explored. Two-dimensional correlation spectroscopy (2D-COS) was used to analyse the mechanisms of spectral peak shifts in complex disturbance systems with CEI and CWI contents, and 15 sensitive feature variables were extracted to establish a quantitative analysis model of a long short-term memory network (LSTM). The results indicated that 2D-COS had good predictive performance in both CEI-LSTM (R2P of 0.9095 and RPD of 2.76) and CWI-LSTM (R2P of 0.8449 and RPD of 2.45), which reduced data information by 88%. This indicates that utilizing 2D-COS can eliminate collinearity and redundant information among variables while achieving data dimensionality reduction and simplification of calibration models. Furthermore, a spatial distribution map of the comprehensive EAA content was generated by combining the optimal prediction model. This study demonstrated that the comprehensive index method furnishes a new approach to rapidly evaluate EAA content.

Predicting rice diseases using advanced technologies at different scales: present status and future perspectives

The past few years have witnessed significant progress in emerging disease detection techniques for accurately and rapidly tracking rice diseases and predicting potential solutions. In this review we focus on image processing techniques using machine learning (ML) and deep learning (DL) models related to multi-scale rice diseases. Furthermore, we summarize applications of different detection techniques, including genomic, physiological, and biochemical approaches. In addition, we also present the state-of-the-art in contemporary optical sensing applications of pathogen-plant interaction phenotypes. This review serves as a valuable resource for researchers seeking effective solutions to address the challenges of high-throughput data and model recognition for early detection of issues affecting rice crops through ML and DL models.

Non-destructive assessment of equivalent umami concentrations in salmon using hyperspectral imaging technology combined with multivariate algorithms

This study utilized equivalent umami concentrations (EUC) to characterize umami intensity in salmon with different freeze-thaw times. A rapid and non-destructive method was established to determine EUC values in salmon which is based on hyperspectral imaging (HSI) system combined with multiple characteristic variable screening methods. The established CARS-PLS model showed greater advantages in correlating the reference values of spectral data with EUC in salmon with Rc of 0.9012, Rp of 0.9009, RMSECV of 0.82, and RMSEP of 0.88. The model was employed pixel-wise to visualize the distribution of EUC with different freeze-thaw times, which demonstrated the reduction of EUC value with the increasing of freeze-thaw times. Therefore, this reseearch showed hyperspectral imaging (HSI) system combined with chemometrics possesses a substantial capability to predict and visualize the EUC of salmon, which would provide an intuitive understanding of salmon quality prediction and detection.

Identification of Defective Maize Seeds Using Hyperspectral Imaging Combined with Deep Learning

Seed quality affects crop yield and the quality of agricultural products, and traditional identification methods are time-consuming, complex, and irreversibly destructive. This study aims to establish a fast, non-destructive, and effective approach for defect detection in maize seeds based on hyperspectral imaging (HSI) technology combined with deep learning. Raw spectra collected from maize seeds (200 each healthy and worm-eaten) were pre-processed using detrending (DE) and multiple scattering correction (MSC) to highlight the spectral differences between samples. A convolutional neural network architecture (CNN-FES) based on a feature selection mechanism was proposed according to the importance of wavelength in the target classification task. The results show that the subset of 24 feature wavelengths selected by the proposed CNN-FES can capture important feature information in the spectral data more effectively than the conventional successive projections algorithm (SPA) and competitive adaptive reweighted sampling (CARS) algorithms. In addition, a convolutional neural network architecture (CNN-ATM) based on an attentional classification mechanism was designed for one-dimensional spectral data classification and compared with three commonly used machine learning methods, linear discriminant analysis (LDA), random forest (RF), and support vector machine (SVM). The results show that the classification performance of the designed CNN-ATM on the full wavelength does not differ much from the above three methods, and the classification accuracy is above 90% on both the training and test sets. Meanwhile, the accuracy, sensitivity, and specificity of CNN-ATM based on feature wavelength modeling can reach up to 97.50%, 98.28%, and 96.77% at the highest, respectively. The study shows that hyperspectral imaging-based defect detection of maize seed is feasible and effective, and the proposed method has great potential for the processing and analysis of complex hyperspectral data.

Feasibility of identifying the authenticity of fresh and cooked mutton kebabs using visible and near-infrared hyperspectral imaging

Mutton kebab is an attractive type of meat product with high nutritional value, and is favored by consumers worldwide. However, mutton kebab is often subjected to adulteration due to its high price. Chicken, duck, and pork are frequently used as adulterated substitutes. The purpose of current study aims at developing a methodology based on hyperspectral imaging (HSI, 400-1000 nm) for identifying the authenticity of fresh and cooked mutton kebabs. Kebab samples were individually scanned using HSI system in their fresh and cooked states. Spectra of chicken, duck, pork, and mutton kebabs were first extracted from representative regions of interest (ROIs) identified in their calibrated hyperspectral images. After that, principal component analysis (PCA) was carried out, and results showed that the first three or two PCs were effective for identifying fresh or cooked samples of different meat species. Different effective modeling algorithms including k-nearest neighbor (KNN), partial least squares discriminant analysis (PLS-DA), and support vector machine (SVM) algorithms combined with different preprocessing methods were employed to develop classification models. Performances exhibited that PLS-DA models using raw spectra outperformed the KNN and SVM models, and the accuracies reached both 100 % in prediction sets for fresh and cooked meat kebabs, respectively. Moreover, compared to iteratively variable subset optimization (IVSO), random frog (RF), and successive projections algorithm (SPA) algorithms, the PC loadings successfully screened 14 and 8 effective wavelengths for fresh and cooked meat kebabs, respectively, from the complex original full-band wavelengths. The PC-PLS-DA models showed the optimal predicted performances with overall classification accuracies of 97.5 % and 100 %, sensitivity values of 1.00 and 1.00, specificity values of 0.97 and 1.00, precisions of 0.91 and 1.00, for fresh and cooked mutton kebabs, respectively. Furthermore, the visualization of classification maps confirmed the experimental results intuitively. Overall, it was evident that HSI showed immense potential to identify the authenticity of fresh and cooked mutton kebabs when substituted by different meats including chicken, duck, and pork.

Sunflower seeds classification based on sparse convolutional neural networks in multi-objective scene

Generally, sunflower seeds are classified by machine vision-based methods in production, which include using photoelectric sensors to identify light-sensitive signals through traditional algorithms for which the equipment cost is relatively high and using neural network image recognition methods to identify images through cameras for which the computational cost is high. To address these problems, a multi-objective sunflower seed classification method based on sparse convolutional neural networks is proposed. Sunflower seeds were obtained from the video recorded using the YOLOv5 Object detection algorithm, and a ResNet-based classification model was used to classify the seeds according to differences in appearance. The ResNet has the disadvantages of having numerous parameters and high storage requirements; therefore, this study referred to the Lottery Ticket Hypothesis and used the Iterative Magnitude Pruning algorithm to compress the sunflower seed classification model, aiming to ascertain the optimal sparse sub-network from the classification model. Experiments were conducted to compare the effects on model performance before and after pruning, pruning degree, and different pruning methods. The results showed that the performance of the ResNet-based sunflower seed classification model using global pruning was the least affected by pruning, with a 92% reduction in the number of parameters, the best accuracy is 0.56% better than non-pruned and 9.17% better than layer-wise pruning. These findings demonstrate that using the Iterative Magnitude Pruning algorithm can render the sunflower seed classification model lightweight with less performance loss. The reduction in computational resources through model compression reduces the cost of sunflower seed classification, making it more applicable to practical production, and this model can be used as a cost-effective alternative to key sunflower seed classification techniques in practical production.

Detection of seed purity of hybrid wheat using reflectance and transmittance hyperspectral imaging technology

Chemical hybridization and genic male sterility systems are two main methods of hybrid wheat production; however, complete sterility of female wheat plants cannot be guaranteed owing to the influence of the growth stage and weather. Consequently, hybrid wheat seeds are inevitably mixed with few parent seeds, especially female seeds. Therefore, seed purity is a key factor in the popularization of hybrid wheat. However, traditional seed purity detection and variety identification methods are time-consuming, laborious, and destructive. Therefore, to establish a non-destructive classification method for hybrid and female parent seeds, three hybrid wheat varieties (Jingmai 9, Jingmai 11, and Jingmai 183) and their parent seeds were sampled. The transmittance and reflectance spectra of all seeds were collected via hyperspectral imaging technology, and a classification model was established using partial least squares-discriminant analysis (PLS-DA) combined with various preprocessing methods. The transmittance spectrum significantly improved the classification of hybrids and female parents compared to that obtained using reflectance spectrum. Specifically, using transmittance spectrum combined with a characteristic wavelength-screening algorithm, the Detrend-CARS-PLS-DA model was established, and the accuracy rates in the testing sets of Jingmai 9, Jingmai 11, and Jingmai 183 were 95.69%, 98.25%, and 97.25%, respectively. In conclusion, transmittance hyperspectral imaging combined with a machine learning algorithm can effectively distinguish female parent seeds from hybrid seeds. These results provide a reference for rapid seed purity detection in the hybrid production process. Owing to the non-destructive and rapid nature of hyperspectral imaging, the detection of hybrid wheat seed purity can be improved by online sorting in the future.

DeepCPPred: A Deep Learning Framework for the Discrimination of Cell-Penetrating Peptides and Their Uptake Efficiencies

Cell-penetrating peptides (CPPs) are special peptides capable of carrying a variety of bioactive molecules, such as genetic materials, short interfering RNAs and nanoparticles, into cells. Recently, research on CPP has gained substantial interest from researchers, and the biological mechanisms of CPPS have been assessed in the context of safe drug delivery agents and therapeutic applications. Correct identification and synthesis of CPPs using traditional biochemical methods is an extremely slow, expensive and laborious task particularly due to the large volume of unannotated peptide sequences accumulating in the World Bank repository. Hence, a powerful bioinformatics predictor that rapidly identifies CPPs with a high recognition rate is urgently needed. To date, numerous computational methods have been developed for CPP prediction. However, the available machine-learning (ML) tools are unable to distinguish both the CPPs and their uptake efficiencies. This study aimed to develop a two-layer deep learning framework named DeepCPPred to identify both CPPs in the first phase and peptide uptake efficiency in the second phase. The DeepCPPred predictor first uses four types of descriptors that cover evolutionary, energy estimation, reduced sequence and amino-acid contact information. Then, the extracted features are optimized through the elastic net algorithm and fed into a cascade deep forest algorithm to build the final CPP model. The proposed method achieved 99.45 percent overall accuracy with the CPP924 benchmark dataset in the first layer and 95.43 percent accuracy in the second layer with the CPPSite3 dataset using a 5-fold cross-validation test. Thus, our proposed bioinformatics tool surpassed all the existing state-of-the-art sequence-based CPP approaches.

Classification of Toona sinensis Young Leaves Using Machine Learning and UAV-Borne Hyperspectral Imagery

Rapid and accurate distinction between young and old leaves of Toona sinensis in the wild is of great significance to the selection of T. sinensis varieties and the evaluation of relative yield. In this study, UAV hyperspectral imaging technology was used to obtain canopy hyperspectral data of biennial seedlings of different varieties of T. sinensis to distinguish young and old leaves. Five classification models were trained, namely Random Forest (RF), Artificial Neural Network (ANN), Decision Tree (DT), Partial Least Squares Discriminant Analysis (PLSDA), and Support Vector Machine (SVM). Raw spectra and six preprocessing methods were used to fit the best classification model. Satisfactory accuracy was obtained from all the five models using the raw spectra. The SVM model showed good performance on raw spectra and all preprocessing methods, and yielded higher accuracy, sensitivity, precision, and specificity than other models. In the end, the SVM model based on the raw spectra produced the most reliable and robust prediction results (99.62% accuracy and 99.23% sensitivity on the validation set only, and 100.00% for the rest). Three important spectral regions of 422.7~503.2, 549.2, and 646.2~687.2 nm were found to be highly correlated with the identification of young leaves of T. sinensis. In this study, a fast and effective method for identifying young leaves of T. sinensis was found, which provided a reference for the rapid identification of young leaves of T. sinensis in the wild.

Rapid and Non-destructive Classification of New and Aged Maize Seeds Using Hyperspectral Image and Chemometric Methods

The aged seeds have a significant influence on seed vigor and corn growth. Therefore, it is vital for the planting industry to identify aged seeds. In this study, hyperspectral reflectance imaging (1,000-2,000 nm) was employed for identifying aged maize seeds using seeds harvested in different years. The average spectra of the embryo side, endosperm side, and both sides were extracted. The support vector machine (SVM) algorithm was used to develop classification models based on full spectra to evaluate the potential of hyperspectral imaging for maize seed detection and using the principal component analysis (PCA) and ANOVA to reduce data dimensionality and extract feature wavelengths. The classification models achieved perfect performance using full spectra with an accuracy of 100% for the prediction set. The performance of models established with the first three principal components was similar to full spectrum models, but that of PCA loading models was worse. Compared to other spectra, the two-band ratio (1,987 nm/1,079 nm) selected by ANOVA from embryo-side spectra achieved a better classification accuracy of 95% for the prediction set. The image texture features, including histogram statistics (HS) and gray-level co-occurrence matrix (GLCM), were extracted from the two-band ratio image to establish fusion models. The results demonstrated that the two-band ratio selected from embryo-side spectra combined with image texture features achieved the classification of maize seeds harvested in different years with an accuracy of 97.5% for the prediction set. The overall results indicated that combining the two wavelengths with image texture features could detect aged maize seeds effectively. The proposed method was conducive to the development of multi-spectral detection equipment.

Discrimination of unsound wheat kernels based on deep convolutional generative adversarial network and near-infrared hyperspectral imaging technology

The quality of wheat kernels is critical to ensure crop yields. However, in actual breeding work, unsound kernels are scarce compared to healthy kernels. Limited data sets or unbalanced data sets make it difficult for many algorithms to accurately identify kernels in different states. A novel method based on deep convolutional generative adversarial network (DCGAN) and near-infrared hyperspectral imaging technology was proposed to identify unsound wheat kernels in this paper. Three classifiers, convolutional neural network (CNN), support vector machine (SVM) and decision tree (DT) were used. After expanding the samples, the results showed that the accuracy of the test set of the DT model increased from 51.67% to 80.83%, a total increase of 29.16%. And the CNN and SVM models increased by 8.34% and 14.17% respectively. This demonstrated that the DCGAN method had the ability to generate reliable data samples for unbalanced data sets for improving the performance of the classifier. On this basis, the training samples are further expanded for improving the performance of the classifier. The results showed that CNN model gained the most from incremental data, and its accuracy rate had been continuously improved from 79.17% to 96.67%, a total increase of 17.50%. This also demonstrated that the DCGAN method had the ability to expand a limited data set. In general, the joint model based on DCGAN and CNN combined with hyperspectral imaging technology had a good prospect in the identification of unsound kernels.

Detection of chlorophyll fluorescence parameters of potato leaves based on continuous wavelet transform and spectral analysis

The tuber development and nutrient transportation of potato crops are closely related to canopy photosynthesis dynamics. Chlorophyll fluorescence parameters of photosystem II, especially the maximum quantum yield of primary photochemistry (Fv/Fm), are intrinsic indicators for plant photosynthesis. Rapid detection of Fv/Fm of leaves by spectroscopy method instead of time-consuming pulse amplitude modulation technique could help to indicate potato development dynamics and guide field management. Accordingly, this study aims to extract fluorescence signals from hyperspectral reflectance to detect Fv/Fm. Hyperspectral imaging system and closed chlorophyll fluorescence imaging system were applied to collect the spectral data and values of Fv/Fm of 176 samples. The spectral data were decomposed by continuous wavelet transform (CWT) to obtain wavelet coefficients (WFs). Three mother wavelet functions including second derivative of Gaussian (gaus2), biorthogonal 3.3 (bior3.3) and reverse biorthogonal 3.3 (rbio3.3) were compared and the bior3.3 showed the best correlation with Fv/Fm. Two variable selection algorithms were used to select sensitive WFs of Fv/Fm including Monte Carlo uninformative variables elimination (MC-UVE) algorithm and random frog (RF) algorithm. Then the partial least squares (PLS) regression was used to establish detection models, which were labeled as bior3.3-MC-UVE-PLS and bior3.3-RF-PLS, respectively. The determination coefficients of prediction set of bior3.3-MC-UVE-PLS and bior3.3-RF-PLS were 0.8071 and 0.8218, respectively, and the root mean square errors of prediction set were 0.0181 and 0.0174, respectively. The bior3.3-RF-PLS had the best detection performance and the corresponding WFs were mainly distributed in the bands affected by fluorescence emission (650-800 nm), chlorophyll absorption and reflection. Overall, this study demonstrated the potential of CWT in fluorescence signals extraction and can serve as a guide in the quick detection of chlorophyll fluorescence parameters.

Variety Identification of Chinese Walnuts Using Hyperspectral Imaging Combined with Chemometrics

Chinese walnuts have extraordinary nutritional and organoleptic qualities, and counterfeit Chinese walnut products are pervasive in the market. The aim of this study was to investigate the feasibility of hyperspectral imaging (HSI) technique to accurately identify and visualize Chinese walnut varieties. Hyperspectral images of 400 Chinese walnuts including 200 samples of Ningguo variety and 200 samples of Lin’an variety were acquired in range of 400–1000 nm. Spectra were extracted from representative regions of interest (ROIs), and principal component analysis (PCA) of spectra showed that the characteristic second principal component (PC2) was potentially effective in variety identification. The PC transformation was also conducted to hyperspectral images to make an exploratory visualization according to pixel-wise PC scores. Three different modeling methods including partial least squares-discriminant analysis (PLS-DA), k-nearest neighbor (KNN), and support vector machine (SVM) were individually employed to develop classification models. Results indicated that raw full spectra constructed PLS-DA model performed best with correct classification rates (CCRs) of 97.33%, 95.33%, and 92.00% in calibration, cross-validation, and prediction sets, respectively. Successful projects algorithm (SPA), competitive adaptive reweighted sampling (CARS), and PC loadings were individually used for effective wavelengths selection. Subsequently, simplified PLS-DA model based on wavelengths selected by CARS yielded the best 96.33%, 95.67% and 91.00% CCRs in the three sets. This optimal CARS-PLS-DA model acquired a sensitivity of 93.62%, a specificity of 88.68%, the area under the receiver operating characteristic curve (AUC) value of 0.91, and Kappa coefficient of 0.82 in prediction set. Classification maps were finally generated by classifying the varieties of each pixel in multispectral images at CARS-selected wavelengths, and the general variety was then readily discernible. These results demonstrated that features extracted from HSI had outstanding ability, and could be applied as a reliable tool for the further development of an on-line identification system for Chinese walnut variety.

Rice Seed Purity Identification Technology Using Hyperspectral Image with LASSO Logistic Regression Model

Hyperspectral technology is used to obtain spectral and spatial information of samples simultaneously and demonstrates significant potential for use in seed purity identification. However, it has certain limitations, such as high acquisition cost and massive redundant information. This study integrates the advantages of the sparse feature of the least absolute shrinkage and selection operator (LASSO) algorithm and the classification feature of the logistic regression model (LRM). We propose a hyperspectral rice seed purity identification method based on the LASSO logistic regression model (LLRM). The feasibility of using LLRM for the selection of feature wavelength bands and seed purity identification are discussed using four types of rice seeds as research objects. The results of 13 different adulteration cases revealed that the value of the regularisation parameter was different in each case. The recognition accuracy of LLRM and average recognition accuracy were 91.67-100% and 98.47%, respectively. Furthermore, the recognition accuracy of full-band LRM was 71.60-100%. However, the average recognition accuracy was merely 89.63%. These results indicate that LLRM can select the feature wavelength bands stably and improve the recognition accuracy of rice seeds, demonstrating the feasibility of developing a hyperspectral technology with LLRM for seed purity identification.

Multi-variable selection strategy based on near-infrared spectra for the rapid description of dianhong black tea quality

The main objectives of the study are to understand and explore critical feature wavelengths of the obtained near-infrared (NIR) data relating to dianhong black tea quality categories, we propose a multi-variable selection strategy based on the variable space optimization from big to small which is the kernel idea of a variable combination of the improved genetic algorithm (IGA) and particle swarm optimization (PSO) in this study. A rapid description based on the NIR technology is implemented to assess black tea tenderness and rankings. First, 700 standard samples from dianhong black tea of seven quality classes are scanned using a NIR system. The raw spectra acquired are preprocessed by Savitzky-Golay (SG) filtering coupled with standard normal variate transformation (SNV). Then, the multi-variable selection algorithm (IGA-PSO) is applied to compare with the single method (the IGA and PSO) and search the optimal characteristic wavelengths. Finally, the identification models are developed using a decision tree (DT), partial least-squares discriminant analysis (PLS-DA), and support vector machine (SVM) based on different kernel functions combined with the effective features from the above variables screening paths for the discrimination of black tea quality. The results show that the IGA-PSO-SVM model with a radial basis function achieves the best predictive results with the correct discriminant rate (CDR) of 95.28% based on selected four characteristic variables in the prediction process. The overall results demonstrate that NIR combined with a multi-variable selection method can constitute a potential tool to understand the most important features involved in the evaluation of dianhong black tea quality helping the instrument manufacturers to achieve the development of low-cost and handheld NIR sensors.

Assessment of the vigor of rice seeds by near-infrared hyperspectral imaging combined with transfer learning

Rice seed vigor plays a significant role in determining the quality and quantity of rice production. Thus, the quick and non-destructive identification of seed vigor is not only beneficial to fully obtain the state of rice seeds but also the intelligent development of agriculture by instant monitoring. Thus, herein, near-infrared hyperspectral imaging technology, as an information acquisition tool, was introduced combined with a deep learning algorithm to identify the rice seed vigor. Both the spectral images and average spectra of the rice seeds were sent to discriminant models including deep learning models and traditional machine learning models, and the highest accuracy of vigor identification reached 99.5018% using the self-built model. The parameters of the established deep learning models were frozen to be feature extractor for transfer learning. The identification results whose highest number also reached almost 98% indicated the possibility of applying transfer learning to improve the universality of the models. Moreover, by visualizing the output of convolutional layers, the progress and mechanism of spectral image feature extraction in the established deep learning model was explored. Overall, the self-built deep learning models combined with near-infrared hyperspectral images in the determination of rice seed vigor have potential to efficiently perform this task.

Advances on Water Quality Detection by UV-Vis Spectroscopy

Water resources are closely linked to human productivity and life. Owing to the deteriorating water resources environment, accurate and rapid determination of the main water quality parameters has become a current research hotspot. Ultraviolet-visible (UV-Vis) spectroscopy offers an effective tool for qualitative analysis and quantitative detection of contaminants in a water environment. In this review, the principle and application of UV-Vis technology in water quality detection were studied. The principle of UV-Vis spectroscopy for detecting water quality parameters and the method of modeling and analysis of spectral data were presented. Various UV-Vis technologies for water quality detection were reviewed according to the types of pollutants, such as chemical oxygen demand, heavy metal ions, nitrate nitrogen, and dissolved organic carbon. Finally, the future development of UV-Vis spectroscopy for the determination of water quality was discussed.