scholarly journals A Large-Scale Dataset and Deep Learning Model for Detecting and Counting Olive Trees in Satellite Imagery

2022 ◽  
Vol 2022 ◽  
pp. 1-8
Author(s):  
Amr Abozeid ◽  
Rayan Alanazi ◽  
Ahmed Elhadad ◽  
Ahmed I. Taloba ◽  
Rasha M. Abd El-Aziz
Keyword(s):  
Deep Learning ◽  
Satellite Imagery ◽  
Large Scale ◽  
Estimation Error ◽  
Satellite Image ◽  
Olive Tree ◽  
Learning Model ◽  
Large Area ◽  
Olive Trees ◽  
Deep Learning Model

Since the Pre-Roman era, olive trees have a significant economic and cultural value. In 2019, the Al-Jouf region, in the north of the Kingdom of Saudi Arabia, gained a global presence by entering the Guinness World Records, with the largest number of olive trees in the world. Olive tree detecting and counting from a given satellite image are a significant and difficult computer vision problem. Because olive farms are spread out over a large area, manually counting the trees is impossible. Moreover, accurate automatic detection and counting of olive trees in satellite images have many challenges such as scale variations, weather changes, perspective distortions, and orientation changes. Another problem is the lack of a standard database of olive trees available for deep learning applications. To address these problems, we first build a large-scale olive dataset dedicated to deep learning research and applications. The dataset consists of 230 RGB images collected over the territory of Al-Jouf, KSA. We then propose an efficient deep learning model (SwinTUnet) for detecting and counting olive trees from satellite imagery. The proposed SwinTUnet is a Unet-like network which consists of an encoder, a decoder, and skip connections. Swin Transformer block is the fundamental unit of SwinTUnet to learn local and global semantic information. The results of an experimental study on the proposed dataset show that the SwinTUnet model outperforms the related studies in terms of overall detection with a 0.94% estimation error.

scholarly journals Microwave Dielectric Property Retrieval from Open-Ended Coaxial Probe Response with Deep Learning

2021 ◽  
Author(s):  
Cemanur Aydinalp ◽  
Sulayman Joof ◽  
Mehmet Nuri Akinci ◽  
Ibrahim Akduman ◽  
Tuba Yilmaz
Keyword(s):  
Deep Learning ◽  
Dielectric Property ◽  
Large Scale ◽  
Real Data ◽  
Learning Model ◽  
Data Generation ◽  
Retrieval Technique ◽  
Design Flexibility ◽  
A New Technique ◽  
Deep Learning Model

In the manuscript, we propose a new technique for determination of Debye parameters, representing the dielectric properties of materials, from the reflection coefficient response of open-ended coaxial probes. The method retrieves the Debye parameters using a deep learning model designed through utilization of numerically generated data. Unlike real data, using synthetically generated input and output data for training purposes provides representation of a wide variety of materials with rapid data generation. Furthermore, the proposed method provides design flexibility and can be applied to any desired probe with intended dimensions and material. Next, we experimentally verified the designed deep learning model using measured reflection coefficients when the probe was terminated with five different standard liquids, four mixtures,and a gel-like material.and compared the results with the literature. Obtained mean percent relative error was ranging from 1.21±0.06 to 10.89±0.08. Our work also presents a large-scale statistical verification of the proposed dielectric property retrieval technique.

scholarly journals A Physics-Infused Deep Learning Model for the Prediction of Refractive Indices and Its Use for the Large-Scale Screening of Organic Compound Space

2019 ◽  
Author(s):  
Mojtaba Haghighatlari ◽  
Gaurav Vishwakarma ◽  
Mohammad Atif Faiz Afzal ◽  
Johannes Hachmann
Keyword(s):  
Machine Learning ◽  
Deep Learning ◽  
Large Scale ◽  
Organic Molecules ◽  
Learning Model ◽  
Training Data ◽  
Refractive Indices ◽  
Learning Models ◽  
Deep Learning Model ◽  
Machine Learning Models

<div><div><div><p>We present a multitask, physics-infused deep learning model to accurately and efficiently predict refractive indices (RIs) of organic molecules, and we apply it to a library of 1.5 million compounds. We show that it outperforms earlier machine learning models by a significant margin, and that incorporating known physics into data-derived models provides valuable guardrails. Using a transfer learning approach, we augment the model to reproduce results consistent with higher-level computational chemistry training data, but with a considerably reduced number of corresponding calculations. Prediction errors of machine learning models are typically smallest for commonly observed target property values, consistent with the distribution of the training data. However, since our goal is to identify candidates with unusually large RI values, we propose a strategy to boost the performance of our model in the remoter areas of the RI distribution: We bias the model with respect to the under-represented classes of molecules that have values in the high-RI regime. By adopting a metric popular in web search engines, we evaluate our effectiveness in ranking top candidates. We confirm that the models developed in this study can reliably predict the RIs of the top 1,000 compounds, and are thus able to capture their ranking. We believe that this is the first study to develop a data-derived model that ensures the reliability of RI predictions by model augmentation in the extrapolation region on such a large scale. These results underscore the tremendous potential of machine learning in facilitating molecular (hyper)screening approaches on a massive scale and in accelerating the discovery of new compounds and materials, such as organic molecules with high-RI for applications in opto-electronics.</p></div></div></div>

scholarly journals Spatio-temporal deep learning model for distortion classification in laparoscopic video

F1000Research ◽  
2021 ◽  
Vol 10 ◽  
pp. 1010
Author(s):  
Nouar AlDahoul ◽  
Hezerul Abdul Karim ◽  
Abdulaziz Saleh Ba Wazir ◽  
Myles Joshua Toledo Tan ◽  
Mohammad Faizal Ahmad Fauzi
Keyword(s):  
Deep Learning ◽  
Large Scale ◽  
Spatial Information ◽  
Short Term Memory ◽  
Learning Model ◽  
Motion Blur ◽  
Video Frame ◽  
Video Enhancement ◽  
Deep Learning Model ◽  
Laparoscopic Videos

Background: Laparoscopy is a surgery performed in the abdomen without making large incisions in the skin and with the aid of a video camera, resulting in laparoscopic videos. The laparoscopic video is prone to various distortions such as noise, smoke, uneven illumination, defocus blur, and motion blur. One of the main components in the feedback loop of video enhancement systems is distortion identification, which automatically classifies the distortions affecting the videos and selects the video enhancement algorithm accordingly. This paper aims to address the laparoscopic video distortion identification problem by developing fast and accurate multi-label distortion classification using a deep learning model. Current deep learning solutions based on convolutional neural networks (CNNs) can address laparoscopic video distortion classification, but they learn only spatial information. Methods: In this paper, utilization of both spatial and temporal features in a CNN-long short-term memory (CNN-LSTM) model is proposed as a novel solution to enhance the classification. First, pre-trained ResNet50 CNN was used to extract spatial features from each video frame by transferring representation from large-scale natural images to laparoscopic images. Next, LSTM was utilized to consider the temporal relation between the features extracted from the laparoscopic video frames to produce multi-label categories. A novel laparoscopic video dataset proposed in the ICIP2020 challenge was used for training and evaluation of the proposed method. Results: The experiments conducted show that the proposed CNN-LSTM outperforms the existing solutions in terms of accuracy (85%), and F1-score (94.2%). Additionally, the proposed distortion identification model is able to run in real-time with low inference time (0.15 sec). Conclusions: The proposed CNN-LSTM model is a feasible solution to be utilized in laparoscopic videos for distortion identification.

scholarly journals Hierarchical Graph Transformer-Based Deep Learning Model for Large-Scale Multi-Label Text Classification

IEEE Access ◽  
2020 ◽  
Vol 8 ◽  
pp. 30885-30896 ◽  
Author(s):  
Jibing Gong ◽  
Hongyuan Ma ◽  
Zhiyong Teng ◽  
Qi Teng ◽  
Hekai Zhang ◽  
...  
Keyword(s):  
Deep Learning ◽  
Text Classification ◽  
Large Scale ◽  
Learning Model ◽  
Hierarchical Graph ◽  
Deep Learning Model

scholarly journals A Joint Deep Learning Model for Simultaneous Batch Effect Correction, Denoising and Clustering in Single-Cell Transcriptomics

2020 ◽  
Author(s):  
Justin Lakkis ◽  
David Wang ◽  
Yuanchao Zhang ◽  
Gang Hu ◽  
Kui Wang ◽  
...  
Keyword(s):  
Gene Expression ◽  
Deep Learning ◽  
Single Cell ◽  
Large Scale ◽  
Nearest Neighbor ◽  
Learning Model ◽  
Batch Effect ◽  
Marker Genes ◽  
Deep Learning Model ◽  
Variable Genes

AbstractRecent development of single-cell RNA-seq (scRNA-seq) technologies has led to enormous biological discoveries. As the scale of scRNA-seq studies increases, a major challenge in analysis is batch effect, which is inevitable in studies involving human tissues. Most existing methods remove batch effect in a low-dimensional embedding space. Although useful for clustering, batch effect is still present in the gene expression space, leaving downstream gene-level analysis susceptible to batch effect. Recent studies have shown that batch effect correction in the gene expression space is much harder than in the embedding space. Popular methods such as Seurat3.0 rely on the mutual nearest neighbor (MNN) approach to remove batch effect in the gene expression space, but MNN can only analyze two batches at a time and it becomes computationally infeasible when the number of batches is large. Here we present CarDEC, a joint deep learning model that simultaneously clusters and denoises scRNA-seq data, while correcting batch effect both in the embedding and the gene expression space. Comprehensive evaluations spanning different species and tissues showed that CarDEC consistently outperforms scVI, DCA, and MNN. With CarDEC denoising, those non-highly variable genes offer as much signal for clustering as the highly variable genes, suggesting that CarDEC substantially boosted information content in scRNA-seq. We also showed that trajectory analysis using CarDEC’s denoised and batch corrected expression as input revealed marker genes and transcription factors that are otherwise obscured in the presence of batch effect. CarDEC is computationally fast, making it a desirable tool for large-scale scRNA-seq studies.

scholarly journals ALGORITHM AND APPLICATION OF GCP-INDEPENDENT BLOCK ADJUSTMENT FOR SUPER LARGE-SCALE DOMESTIC HIGH RESOLUTION OPTICAL SATELLITE IMAGERY

2018 ◽  
Vol XLII-3 ◽  
pp. 1607-1615
Author(s):  
Y. S. Sun ◽  
L. Zhang ◽  
B. Xu ◽  
Y. Zhang
Keyword(s):  
High Resolution ◽  
Satellite Imagery ◽  
Large Scale ◽  
Satellite Images ◽  
Satellite Image ◽  
Optimization Method ◽  
Adjustment Process ◽  
Large Area ◽  
Rank Defect ◽  
And Performance

The accurate positioning of optical satellite image without control is the precondition for remote sensing application and small/medium scale mapping in large abroad areas or with large-scale images. In this paper, aiming at the geometric features of optical satellite image, based on a widely used optimization method of constraint problem which is called Alternating Direction Method of Multipliers (ADMM) and RFM least-squares block adjustment, we propose a GCP independent block adjustment method for the large-scale domestic high resolution optical satellite image &amp;ndash; GISIBA (GCP-Independent Satellite Imagery Block Adjustment), which is easy to parallelize and highly efficient. In this method, the virtual "average" control points are built to solve the rank defect problem and qualitative and quantitative analysis in block adjustment without control. The test results prove that the horizontal and vertical accuracy of multi-covered and multi-temporal satellite images are better than 10&amp;thinsp;m and 6&amp;thinsp;m. Meanwhile the mosaic problem of the adjacent areas in large area DOM production can be solved if the public geographic information data is introduced as horizontal and vertical constraints in the block adjustment process. Finally, through the experiments by using GF-1 and ZY-3 satellite images over several typical test areas, the reliability, accuracy and performance of our developed procedure will be presented and studied in this paper.

scholarly journals DiPLIP: Distributed Parallel Processing Platform for Stream Image Processing Based on Deep Learning Model Inference

Electronics ◽  
2020 ◽  
Vol 9 (10) ◽  
pp. 1664
Author(s):  
Yoon-Ki Kim ◽  
Yongsung Kim
Keyword(s):  
Image Processing ◽  
Deep Learning ◽  
Parallel Processing ◽  
Real Time ◽  
Large Scale ◽  
Learning Model ◽  
Streaming Data ◽  
Model Inference ◽  
Processing Platform ◽  
Deep Learning Model

Recently, as the amount of real-time video streaming data has increased, distributed parallel processing systems have rapidly evolved to process large-scale data. In addition, with an increase in the scale of computing resources constituting the distributed parallel processing system, the orchestration of technology has become crucial for proper management of computing resources, in terms of allocating computing resources, setting up a programming environment, and deploying user applications. In this paper, we present a new distributed parallel processing platform for real-time large-scale image processing based on deep learning model inference, called DiPLIP. It provides a scheme for large-scale real-time image inference using buffer layer and a scalable parallel processing environment according to the size of the stream image. It allows users to easily process trained deep learning models for processing real-time images in a distributed parallel processing environment at high speeds, through the distribution of the virtual machine container.

scholarly journals Toward Large-Scale Mapping of Tree Crops with High-Resolution Satellite Imagery and Deep Learning Algorithms: A Case Study of Olive Orchards in Morocco

2021 ◽  
Vol 13 (9) ◽  
pp. 1740
Author(s):  
Chenxi Lin ◽  
Zhenong Jin ◽  
David Mulla ◽  
Rahul Ghosh ◽  
Kaiyu Guan ◽  
...  
Keyword(s):  
Deep Learning ◽  
Satellite Imagery ◽  
Large Scale ◽  
Feature Space ◽  
Temporal Information ◽  
Tree Crops ◽  
Climatic Regions ◽  
Multi Temporal ◽  
Olive Trees ◽  
High Resolution Satellite Imagery

Timely and accurate monitoring of tree crop extent and productivities are necessary for informing policy-making and investments. However, except for a very few tree species (e.g., oil palms) with obvious canopy and extensive planting, most small-crown tree crops are understudied in the remote sensing domain. To conduct large-scale small-crown tree mapping, several key questions remain to be answered, such as the choice of satellite imagery with different spatial and temporal resolution and model generalizability. In this study, we use olive trees in Morocco as an example to explore the two abovementioned questions in mapping small-crown orchard trees using 0.5 m DigitalGlobe (DG) and 3 m Planet imagery and deep learning (DL) techniques. Results show that compared to DG imagery whose mean overall accuracy (OA) can reach 0.94 and 0.92 in two climatic regions, Planet imagery has limited capacity to detect olive orchards even with multi-temporal information. The temporal information of Planet only helps when enough spatial features can be captured, e.g., when olives are with large crown sizes (e.g., >3 m) and small tree spacings (e.g., <3 m). Regarding model generalizability, experiments with DG imagery show a decrease in F1 score up to 5% and OA to 4% when transferring models to new regions with distribution shift in the feature space. Findings from this study can serve as a practical reference for many other similar mapping tasks (e.g., nuts and citrus) around the world.

scholarly journals UbiComb: A Hybrid Deep Learning Model for Predicting Plant-Specific Protein Ubiquitylation Sites

Genes ◽  
2021 ◽  
Vol 12 (5) ◽  
pp. 717
Author(s):  
Arslan Siraj ◽  
Dae Yeong Lim ◽  
Hilal Tayara ◽  
Kil To Chong
Keyword(s):  
Mass Spectrometry ◽  
Deep Learning ◽  
Large Scale ◽  
Critical Role ◽  
Learning Model ◽  
Mass Spectrometry Analysis ◽  
Independent Dataset ◽  
Effective Manner ◽  
Wide Range ◽  
Deep Learning Model

Protein ubiquitylation is an essential post-translational modification process that performs a critical role in a wide range of biological functions, even a degenerative role in certain diseases, and is consequently used as a promising target for the treatment of various diseases. Owing to the significant role of protein ubiquitylation, these sites can be identified by enzymatic approaches, mass spectrometry analysis, and combinations of multidimensional liquid chromatography and tandem mass spectrometry. However, these large-scale experimental screening techniques are time consuming, expensive, and laborious. To overcome the drawbacks of experimental methods, machine learning and deep learning-based predictors were considered for prediction in a timely and cost-effective manner. In the literature, several computational predictors have been published across species; however, predictors are species-specific because of the unclear patterns in different species. In this study, we proposed a novel approach for predicting plant ubiquitylation sites using a hybrid deep learning model by utilizing convolutional neural network and long short-term memory. The proposed method uses the actual protein sequence and physicochemical properties as inputs to the model and provides more robust predictions. The proposed predictor achieved the best result with accuracy values of 80% and 81% and F-scores of 79% and 82% on the 10-fold cross-validation and an independent dataset, respectively. Moreover, we also compared the testing of the independent dataset with popular ubiquitylation predictors; the results demonstrate that our model significantly outperforms the other methods in prediction classification results.

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