TS 20161 - Clean File
TS 20161 - Clean File
Early Detection of Grapevine Viral Disease Using Hyper spectral Imaging and Optimized
Rajalakshmi S1, Alagumani S2, Ananthi R.K3 and Surendran Rajendran4*
Neural Networks
1
Department of Department of Artificial Intelligence and Data Science, Dr. N.G.P. Institute of Technology,
Coimbatore, 641048, India. mrajislm@gmail.com
2
Department of Computer Science and Engineering, SRM Institute of Science and Technology,
Ramapuram Campus, Chennai – 600 089, India. alagumas@srmist.edu.in
3
Department of Artificial Intelligence and Data Science, K.Ramakrishnan College of Engineering, Tiruchirapalli,
621112, India. anuu.rk@gmail.com
4
Department of Computer Science and Engineering, Saveetha School of Engineering, Saveetha Institute of Medical
and Technical Sciences, Chennai, 602105, India. surendran.phd.it@gmail.com
https://doi.org/10.18280/ts.xxxxxx ABSTRACT
Received: Early identification of viral infections in grapevines is necessary for prompt intervention to
Accepted: prevent disease dissemination across the field. Remote sensing using hyper spectral technology
may be able to non - destructively identify and measure viral infections. The present research
Keywords: used hyper spectral photography at the plant level to identify and categories grapevines infected
Chlorophyll content, grapevine viral disease, with the newly found DNA virus grapevine vein-clearing virus (GVCV), mostly during the first
hyper spectral images, neural network asymptomatic Here, only grapevine pixels were kept in the hyper spectral images after
optimization, Artificial Humming Bird calibration and preprocessing. In Addition, a statistical technique was used to distinguish
Optimization and ZfNet+VGG19 between two reflectance spectrums patterns from vines that are both healthy and GVCV. After
preprocessing the data, an artificial hummingbird optimization technique is used to extract the
features, ensuring that only the most pertinent features are chosen and that the overall model
classification is improved. Furthermore, a nondestructive method is chosen to calculate the total
chlorophyll (Chl) content of grape leaves. Chl concentration and the red-edge chlorophyll index
were found to be correlated with reflectance measurements in the near-infrared (755-765 nm)
and red-edge (710-720 nm) spectral ranges. Following this assessment, a hybrid of
ZfNet+VGG19 is employed for both pixel-wise and image-wise classification of disease
severity. The suggested approach, known as the Artificial Humming Bird Optimized
ZfNet+VGG19 neural network (AHB_ ZfNet+VGG19), which has the advantage of achieving
large gain in speed and an increase in accuracy. The incorporation of prior training and the
deepening of the model were mostly responsible for this. It is evaluated against standard
approaches and hence the suggested method achieves98.27% of accuracy, 97.67% of precision,
97.41% of recall and 97.74% of F1score for Salinas dataset and 98.45% of accuracy, 97.1% of
precision, 97.41% of recall and 97.6% of F1-score for Indian pine
The Artificial Humming Bird Optimized ZfNet+VGG19 The computational complexity brought on by
neural networks (AHB_ ZfNet+VGG19) used in this processing the enormous volume of data is one of the
research are developed as seen in figure 1. The hyper difficult issues in processing high dimensional data with
spectral photos of grapes are first captured using a wireless improved spectral and temporal resolution. In particular,
sensor network, then preprocessed. In order to determine this is valid for hyperspectral photographs with a wide
the reflectance spectra of healthy and diseased leaves, the range of spectral bands. Hyperspectral photography must
preprocessed data were subjected to a spectral signal be preprocessed in order to decrease the dimensions and
discrimination approach. To get the best results, the computing complexities of the data, as well as for display
artificial hummingbird (AHB) optimization approach for and optimal band picking. When compared to pixels that
dimensionality reduction is used, followed by are far apart from one another, those with comparable
ZfNet+VGG19-based classification. spatial placements are more likely to be part of the same
sort of thing. The distance between comparable pixels is
nearer and more probable to convergence in the feature
space. The pixels are no longer separate data points when
viewed from a location within the data field. Instead, they
stand for a variety of radioactive particles. Any given spot
emits energy into the whole region that the picture covers.
With greater distance, the energy's intensity diminishes.
Every pixel collects energy from the points around it and
radiates energy outward to other points. In this formula, the
potential energy function is determined (1).
( x−n y )
k
(1)
φ=m× e
3
interactions among individual data pixels rise as the impact amazing capacity to find the best solutions with these
factor rises, and the line features become closer together. remarkable abilities. The modelling description of the
AHB is demonstrated by establishing the initial population
3.3 Spectral Signal Discrimination of X hummingbirds from N individuals, as seen in Eq. (4)
SD =2
p
( n1−1 ) SD21 + ( n2−1 ) SD22
( n1 −1 ) + ( n2−1 )
(2) {
D(i )= 1, if i=randi ( [ 1 , d ] } i=1 , 2 , … .d
0 , else
(6)
The t values were determined by substituting Eq. (1) Eq. (7) may be used to represent the diagonal flight
into Eq. (2):
{
1 , if i=Pp ( j ) , jϵ [ 1 , k ]
D(i )= , Pp=randperm ( Kp )
√
M 1−M 2 SD 2p SD 2p (7)
where , SE( M −M )= + (3) , Kp ∈[2 , [ r 1 . ( d−2 ) ] +1]
SE(M − M )
1 2
1 2
n1 n2 0 , else i=1 , … .d
where n1 is the number of specimens taken from healthy Eq. (8) represents the omni-directional flying.
vines, M 1 is the mean reflectance of band i of normal
(i )
vines, M 2 is the meanreflectance of band i of pathogens D =1 i=1 ,2 , … d (8)
2
SD
vines, and
p
is the number of specimens taken from whererand i([1 , d ]) stands for a randomly generated
n2 integer between 1∧d , randperm(k ) for a randomly
2
diseased vines is n2 , and the pooled variance is SD p in Eq. generated permutations of the values between 1∧k , and
(3). r 1∈[0 , 1] for a random number between 0 and 1. Eq. (9)
is used to generate the directed foraging behavior
3.4 Artificial hummingbird optimization based feature
extraction V i ( t+1 ) =X i ,t ( t ) +a × D × ¿(9)
Here, the Artificial Hummingbird (AHB) optimization
algorithm's feature extraction procedure is described. The Where X i , t ( t )indicates the food source i for t iteration.
AHB replicates the remarkable flying prowess and cunning The hummingbirds' preferred food source is X i , t ( t ).
feeding strategies of hummingbirds in the wild. Axial, Territorial Foraging- A hummingbird is highly possible
diagonal, and omnidirectional foraging methods are used to look for a new food source rather than to visit other
in this method. The goal is to simulate the hummingbird's existing food sources when flower nectar runs out. A
ability to remember where food is located, directed, hummingbird may therefore effortlessly fly to a nearby
territorial, and migratory foraging methods are also used, location inside its region where it can discover a
along with a visiting table. The method is simple and has potentially superior food source. Eq. (10) is used to
just a few fixed parameters that may be changed. Each represent the situation
hummingbird in the AHB is given a distinct food source
from which to feed. Hummingbirds are able to retain the
V i ( t+1 ) =X i ,t ( t ) +b × D × X i (t ) , bϵN (0 ,1)
location and frequency of nectar replenishment for this
specific food source. It can remember the intervals (10)
between trips to each food source. The AHB has an
4
Migration Foraging-A hummingbird will travel to a
different eating area if its favorite spot runs out of food. This section introduces the categorization procedure
The visit table will change when this hummingbird utilizing a pretrained CNN. Three layers make up a CNN:
switches from its prior food source to the new one. The a convolutional layer, a pooling layer, and a fully
migratory of a hummingbird from a nectar source with the connected layer. Computer vision activities including
fewest nectar replenishments to the one with a randomized picture creation, image classification, image captioning,
rate of nectar generation is described Eq. (11). and many more may be performed using four pretrained
networks. VGG19 and ZfNet were two of these pretrained
X w ( t +1 )=L+r ×(U−L) (11) networks utilized in this research. For layer-by-layer
convolutional network visualization and comprehension,
The food supply with the least fitness value is ZfNet+VGG19 is utilized. The network used batch
stochastic gradient descent for training and ReLUs for
represented by X w in this case. The visiting table is a key
activation. ZfNet+VGG19 architecture considerably
part of the AHA technique. Equ. (12) used to update the outperforms AlexNet by dissecting the convolutional
visiting table for every hummingbird. network layer by layer, changing the layer hyper-
parameters like filter size or stride, and successfully
VT i , k =VT i ,k +1 ,if k ≠i∧k ≠target , k=1 , 2 … . hn reducing the error rates. The model architecture of a deep
(12) convolutional neural network is shown in Figure 2. The
depth of the network depends on the number of hidden
The time that the same hummingbirds visited each food layers. Hidden layers are those layers that exist between
source is shown in this visiting table. A high number of the input and output layers. It has 3 completely connected
visits is indicated by a lengthy time between visits. layers, max-pooling layers, and 5 shared convolutional
layers.
3.5 Chlorophyll estimation The dataset was separated into a training and testing
dataset for every class after just a feature extraction
A conceptual approach was created to quantify the process. It comprises of training and testing pictures for
concentration of plant pigments such total chlorophyll, DS1, DS2, DS3, and DS4 of 2452, 4238, 4011, and 10292
anthocyanins, and carotenoids using three distinct spectral photos and 584, 1971, 1357, and 3912 images,
bands. In three spectral bandsτi , the model establishes a accordingly. The complete dataset that serves as the input
relationship between the target pigment and leaf for the model was downsized to 224224 pixels. Based on
reflectance ρ τi in Equ. (13): the number of categories, the output of the final completely
linked layer was divided into 5 groups. It calculated and
−1 −1 −1 recorded the average value that had exponentially
pigment contnet ∝ a pigment =( ρτin −ρτ 2n )× ρτ 3n depreciated in the two instances before it and calculated
the averaged of the prior gradients that had depreciated
(13) exponentially.
P NIR
CI green = −1 (14)
P green
P NIR
CI red edge= −1 (15) Figure 2. Architecture of ZfNet+VGG19
Pr 4 ed edge
Pooling layer: This is employed to reduce the spatial
It was discovered that CI green is only a reliable indicator domain and hence the network's calculation after the
of chlorophyll concentration in leaves lacking of convolution layer. Typically, the kernel size in
anthocyanin IN Eq. (15). Anthocyanin consumes in situ at ZfNet+VGG19 is 2 × 2 with stride 2. In this case, the
around 550 nm; as a result, if ρλ1 is near 550 nm in the pooling layer executes the maximum operation across the
green band, the index will be significantly impacted by the restricted spatial area R, yielding a feature map in Eq. (16):
absorption of both anthocyanin and Chl. The amount of l l
p =maxi ∈R α i (16)
Chl was overestimated. In order to estimate Chl in leaves
Fully connected (FC) layer: In ZfNet+VGG19, FC are
that contain anthocyanins, it was recommended to utilize
emulated employing a convolution with a size of n1, n2,
theCI red edge. where n1 × n2are the sizes of the input and output tensors,
accordingly. In most cases, n1 is an integer and n2 is a
3.6 ZfNet+VGG19 based classification triplet (7 × 7 × 512).
5
Dropout: This layer, which is also known as "Drop," is Precision=True Positives /(True Positives+ False Positives)
often used to reduce the input fit and enhance the DL
algorithm's hypothesis. Typically, it gives the network Recall, also known as sensitivity or true positive rate,
nodes weights (in PDCNN the percentage of 0.5 is is another performance metric used in statistics and
assigned to the two drop layers). machine learning to assess the effectiveness of a
Softmax: A ReLU layer accompanies the DL model classification model. Recall measures the proportion
with several layers and a convolution layer, establishing of correctly predicted positive instances out of the
the nonlinearity in the ZfNet+VGG19 model, and is often total actual positive instances.
represented as “σ”. Recall=True Positives/(True Positives+ False Negatives)
The categorization of the grape picture to 3-D groups
has been performed along with the borders. The grape
image has been coupled in groups with size b and then sent F1-Score of the classification algorithm is the
weighted measure whose value ranges between 0 and
to the In ZfNet+VGG19.The d ×d ×n groups are then fed
1, where value 1 denotes the better performance of the
into the first layer of convolution (c1), which is composed
classification algorithm and the value 0 denotes the
of k c1 filters of the form l c 1 ×l c 1 × q c1 , where q c1 =n, poor performance of the classification algorithm.
the stride is constant at 1, and padding is not present. F 1 score=2∗( precision∗Sensitivity )/( precision+Sen
After applying the ReLU function, the feature maps for
c1
k were generated using c1, and these were then directed 3.8 Data collection
to MaxPool's first layer (mp1) using a l mp 1 × l mp 1kernel,
stride of 2, and padding. A total of 200 hyperspectral images were collected
The volume of the simulation analysis for during the trial period in summer 2019. The data collection
mp 1 mp 1 mp 1 c1 spanned over several days, with images captured at
p =d ×d ×k has been targeted for the
different time points to account for variations in
subsequent convolution layer (c2) with k c2 filters of size
c2 c2 c2 c2 c1
environmental conditions and disease progression. The
l ×l ×q , where q =k and that has a comparable rationale behind choosing the University of Missouri South
beginning convolution stride in addition to without Farm Research Center in Columbia, Missouri (38.92 N,
padding. 92.28 W) as the data collection location was based on its
known high vulnerability to Grapevine Vein Clearing
3.7 Performance analysis Virus (GVCV). This location provided an ideal setting to
study the early detection of GVCV in the Chardonel
The effectiveness of our proposed Artificial Humming cultivar, as it is known to be affected by the virus. To
Bird Optimized ZfNet+VGG19 neural network (AHB_ ensure robust data collection and experimental control, the
ZfNet+VGG19), utilising metrics including accuracy, grapevines were divided into two groups: one with normal
precision, recall and F1-score. Two baseline methods such vines and the other with vines infected with GVCV
as Spectral Dilated Convolution 3-Dimensional pathogens. This division allowed for a comparative study
Convolutional Neural Network (SDC-3DCNN), VGG-16 under comparable circumstances, minimizing potential
+GoogleNetare evaluated. confounding factors. The hyperspectral imaging system
Accuracy describes how closely a specific value used for data collection had a fixed image size of 512×512
matches cases that have been categorized. Accuracy is pixels, capturing information across 204 bands ranging
the representation of systematic mistakes and from 397 to 1004 nm with a spectral resolution of 3 nm.
statistical bias. Additionally, it is the recognition The viewing area was 0.55 x 0.55 m, and the system
(combined TP and TN values) among the count of the claimed to provide a spatial resolution of 1.07 mm at a
assessed classes as well as the estimation's adequacy distance of 1 meter from the object. For this investigation,
to the genuine value. It's calculated as, the grapevines were photographed at the canopy level from
TP+True Negative (TN) a distance of 1-2 meters, ensuring that the imaging system
Accuracy= captured detailed and representative information from the
TP+TN + FP+ FN
vines. Overall, the careful data collection process and the
choice of location and grapevine cultivar ensured a
Precision is a performance metric commonly used in
comprehensive dataset for studying the early detection of
statistics and machine learning to evaluate the
GVCV using hyperspectral imaging and optimized neural
accuracy of a classification model. It measures the
networks Table 1 shows the performance analysis of
proportion of correctly predicted positive instances
accuracy for different methods.
out of the total instances predicted as positive.
Precision can be defined as:
Table 1. Performance analysis of accuracy for different methods
7
Figures 5 and 6 depict the precision evaluation for Salinas and
Indian pine dataset. The comparison is done between existing
SDC-3DCNN, VGG-16 +GoogleNet with the proposed
AHB_ ZfNet+VGG19. X axis and Y axis show that various
class labels and the values obtained in percentage,
respectively. When contrasted with existing SDC-3DCNN
and v-gg-16 +GoogleNet methods achieve 82.1% and 84.3%
of precision, respectively, while the proposed AHB_
ZfNet+VGG19method achieves97.67% of precision for
Salinas dataset, which is 15.57% and 13.37% better than
SDC-3DCNN and VGG-16 +GoogleNet. While analyzing
Indian pine dataset, SDC-3DCNN and VGG-16 +GoogleNet
method achieves 84% and 82%, while the proposed AHB_
ZfNet+VGG19 achieves 97.1% of precision, which is 13.1%
and 15% better than the existing methods. Table 3 shows the
performance analysis of recall for different methods.
Figure 5. Analysis of precision for Salinas’s dataset
Class label SDC- VGG- AHB_ Class label SDC-3DCNN VGG- AHB_
3DCNN 16+GoogleNet ZfNet+VGG1 16+GoogleNet ZfNet+VGG19
9
Sable 87.4 86.4 97.45 Autumn 86.4 84.6 96.53
Seedless Royal
Alphonse 89.3 87.4 96.2 Crimson 84.5 87.5 97.56
Lavallée
Lival 84.4 86.5 98.4 Itum4 87.4 84.6 98.4
Black Magic 87.6 85.3 96.9 Itum5 82.6 87.5 97.6
Sugarone 85.1 82.6 94.8 Itum9 84.6 86.2 98.2
Superior
Seedless
Thompson 86.3 84.7 97.5 Vinyard_untr 87.4 86.5 96.8
Seedless ained
Victoria 84.3 84.6 96.3 Vinyard_vert 89.6 86.3 94.5
ical_trellis
8
Figure 9. Analysis of F1-score for Salinas dataset
The F1-score analysis for the Salinas and Indian Pine datasets is shown in Figures 9 and 10. The suggested AHB_
9
ZfNet+VGG19 is compared with the already existing SDC- pine dataset, SDC-3DCNN and VGG-16 +GoogleNet
3DCNN VGG-16 + GoogleNet. Different class names and methods achieved 86.4% and 82.4%, while the proposed
percentage values are shown on the X and Y axes, AHB_ ZfNet+VGG19 achieves 97.6% of F1-score, which is
accordingly. When contrasted, existing SDC-3DCNN and 11.2% and 15.2% better than existing methods.
VGG-16 +GoogleNet methods achieve 83.4% and 83% of F1- Tables 5 and 6 show the analysis of Salinas’s dataset and
scorerespectively, while the proposed AHB_ Indian pine dataset for the proposed AHB_ ZfNet+VGG19.
ZfNet+VGG19method achieves97.74% of F1-score for
Salinas dataset, which is 14.31% and 14.3% better than SDC-
3DCNN and VGG-16 +GoogleNet. While analyzing Indian
Table 5. Parametric analysis on Salinas’s dataset for the proposed AHB_ ZfNet+VGG19
Class label Accuracy Precision Recall F1-score
Sable Seedless 97.3 96.7 97.6 97.6
Alphonse Lavallée 99.7 97.6 98.9 97.6
Lival 96.8 98.5 97.4 97.6
Black Magic 99.6 97.6 95.8 96.8
Sugarone Superior 96.8 94.5 98.5
97.5
Seedless
Thompson 98.9 97.3 97.6
98.4
Seedless
Victoria 98.6 97.6 98.5 98.5
Average 98.27 97.67 97.41 97.74
Table 6. Parametric analysis on Indian pine dataset using the proposed AHB_ ZfNet+VGG19
Class label Accuracy Precision Recall F1-score
Autumn Royal 98.4 95.8 96.9 98.5
Crimson 97.6 96.7 97.8 96.7
Itum4 98.9 97.6 96.8 98.7
Itum5 98.5 98.1 94.9 95.9
Itum9 97.9 94.9 93.4 97.5
Vinyard_untrained 98.7 97.5 98.2 98.4
Vinyard_vertical_trellis 99.2 98.5 98.9 97.8
Average 98.45 97.1 97.41 97.6
4. CONCLUSION
researchers in managing disease outbreaks and maintaining crop
This research demonstrates the potential of hyper spectral health. The findings of this study contribute significantly to the
remote sensing technology for early detection of viral field of agricultural diagnostics and offer new avenues for
infections in grapevines, particularly in the case of the newly precision farming practices. Continued research in this area may
discovered DNA virus, grapevine vein-clearing virus lead to even more advanced and efficient disease detection
(GVCV). The study successfully identifies and categorizes methods, ultimately benefiting the grapevine industry and
infected grapevines during their initial asymptomatic stages, promoting sustainable and resilient agriculture
paving the way for timely intervention to prevent disease
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