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Register a new userA Comprehensive Review of Image Analysis Methods for Microorganism Counting: From Classical Image Processing to Deep Learning Approaches
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Microorganisms such as bacteria and fungi play essential roles in many application fields, like biotechnique, medical technique and industrial domain. Microorganism counting techniques are crucial in microorganism analysis, helping biologists and related researchers quantitatively analyze the microorganisms and calculate their characteristics, such as biomass concentration and biological activity. However, traditional microorganism manual counting methods, such as plate counting method, hemocytometry and turbidimetry, are time-consuming, subjective and need complex operations, which are difficult to be applied in large-scale applications. In order to improve this situation, image analysis is applied for microorganism counting since the 1980s, which consists of digital image processing, image segmentation, image classification and suchlike. Image analysis-based microorganism counting methods are efficient comparing with traditional plate counting methods. In this article, we have studied the development of microorganism counting methods using digital image analysis. Firstly, the microorganisms are grouped as bacteria and other microorganisms. Then, the related articles are summarized based on image segmentation methods. Each part of the article is reviewed by methodologies. Moreover, commonly used image processing methods for microorganism counting are summarized and analyzed to find common technological points. More than 144 papers are outlined in this article. In conclusion, this paper provides new ideas for the future development trend of microorganism counting, and provides systematic suggestions for implementing integrated microorganism counting systems in the future. Researchers in other fields can refer to the techniques analyzed in this paper.
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The Bangla language is the seventh most spoken language, with 265 million native and non-native speakers worldwide. However, English is the predominant language for online resources and technical knowledge, journals, and documentation. Consequently, many Bangla-speaking people, who have limited command of English, face hurdles to utilize English resources. To bridge the gap between limited support and increasing demand, researchers conducted many experiments and developed valuable tools and techniques to create and process Bangla language materials. Many efforts are also ongoing to make it easy to use the Bangla language in the online and technical domains. There are some review papers to understand the past, previous, and future Bangla Natural Language Processing (BNLP) trends. The studies are mainly concentrated on the specific domains of BNLP, such as sentiment analysis, speech recognition, optical character recognition, and text summarization. There is an apparent scarcity of resources that contain a comprehensive study of the recent BNLP tools and methods. Therefore, in this paper, we present a thorough review of 71 BNLP research papers and categorize them into 11 categories, namely Information Extraction, Machine Translation, Named Entity Recognition, Parsing, Parts of Speech Tagging, Question Answering System, Sentiment Analysis, Spam and Fake Detection, Text Summarization, Word Sense Disambiguation, and Speech Processing and Recognition. We study articles published between 1999 to 2021, and 50% of the papers were published after 2015. We discuss Classical, Machine Learning and Deep Learning approaches with different datasets while addressing the limitations and current and future trends of the BNLP.
Recently, deep learning approaches have become the main research frontier for biological image reconstruction problems thanks to their high performance, along with their ultra-fast reconstruction times. However, due to the difficulty of obtaining matched reference data for supervised learning, there has been increasing interest in unsupervised learning approaches that do not need paired reference data. In particular, self-supervised learning and generative models have been successfully used for various biological imaging applications. In this paper, we overview these approaches from a coherent perspective in the context of classical inverse problems, and discuss their applications to biological imaging.
Filtering multi-dimensional images such as color images, color videos, multispectral images and magnetic resonance images is challenging in terms of both effectiveness and efficiency. Leveraging the nonlocal self-similarity (NLSS) characteristic of images and sparse representation in the transform domain, the block-matching and 3D filtering (BM3D) based methods show powerful denoising performance. Recently, numerous new approaches with different regularization terms, transforms and advanced deep neural network (DNN) architectures are proposed to improve denoising quality. In this paper, we extensively compare over 60 methods on both synthetic and real-world datasets. We also introduce a new color image and video dataset for benchmarking, and our evaluations are performed from four different perspectives including quantitative metrics, visual effects, human ratings and computational cost. Comprehensive experiments demonstrate: (i) the effectiveness and efficiency of the BM3D family for various denoising tasks, (ii) a simple matrix-based algorithm could produce similar results compared with its tensor counterparts, and (iii) several DNN models trained with synthetic Gaussian noise show state-of-the-art performance on real-world color image and video datasets. Despite the progress in recent years, we discuss shortcomings and possible extensions of existing techniques. Datasets and codes for evaluation are made publicly available at https://github.com/ZhaomingKong/Denoising-Comparison.
Microorganisms play a vital role in human life. Therefore, microorganism detection is of great significance to human beings. However, the traditional manual microscopic detection methods have the disadvantages of long detection cycle, low detection accuracy in large orders, and great difficulty in detecting uncommon microorganisms. Therefore, it is meaningful to apply computer image analysis technology to the field of microorganism detection. Computer image analysis can realize high-precision and high-efficiency detection of microorganisms. In this review, first,we analyse the existing microorganism detection methods in chronological order, from traditional image processing and traditional machine learning to deep learning methods. Then, we analyze and summarize these existing methods and introduce some potential methods, including visual transformers. In the end, the future development direction and challenges of microorganism detection are discussed. In general, we have summarized 137 related technical papers from 1985 to the present. This review will help researchers have a more comprehensive understanding of the development process, research status, and future trends in the field of microorganism detection and provide a reference for researchers in other fields.
With the development of computer-aided diagnosis (CAD) and image scanning technology, Whole-slide Image (WSI) scanners are widely used in the field of pathological diagnosis. Therefore, WSI analysis has become the key to modern digital pathology. Since 2004, WSI has been used more and more in CAD. Since machine vision methods are usually based on semi-automatic or fully automatic computers, they are highly efficient and labor-saving. The combination of WSI and CAD technologies for segmentation, classification, and detection helps histopathologists obtain more stable and quantitative analysis results, save labor costs and improve diagnosis objectivity. This paper reviews the methods of WSI analysis based on machine learning. Firstly, the development status of WSI and CAD methods are introduced. Secondly, we discuss publicly available WSI datasets and evaluation metrics for segmentation, classification, and detection tasks. Then, the latest development of machine learning in WSI segmentation, classification, and detection are reviewed continuously. Finally, the existing methods are studied, the applicabilities of the analysis methods are analyzed, and the application prospects of the analysis methods in this field are forecasted.
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