A comprehensive review of image analysis methods for microorganism counting: from classical image processing to deep learning approaches

DeepCervix: A deep learning-based framework for the classification of cervical cells using hybrid deep feature fusion techniques

(2021) Md Mamunur Rahaman et al.   COMPUTERS IN BIOLOGY AND MEDICINE

LCU-Net: A novel low-cost U-Net for environmental microorganism image segmentation

(2021) Jinghua Zhang et al.   PATTERN RECOGNITION

A review for cervical histopathology image analysis using machine vision approaches

(2020) Chen Li et al.   ARTIFICIAL INTELLIGENCE REVIEW

The continuing 2019-nCoV epidemic threat of novel coronaviruses to global health — The latest 2019 novel coronavirus outbreak in Wuhan, China

(2020) David S. Hui et al.   INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES

The proximal origin of SARS-CoV-2

(2020) Kristian G. Andersen et al.   NATURE MEDICINE

Automated classification of bacterial cell sub-populations with convolutional neural networks

(2020) Denis Tamiev et al.   PLoS One

The impact of pre- and post-image processing techniques on deep learning frameworks: A comprehensive review for digital pathology image analysis

(2020) Massimo Salvi et al.   COMPUTERS IN BIOLOGY AND MEDICINE

Automated image analysis with ImageJ of yeast colony forming units from cannabis flowers

(2019) Nicholas Stolze et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Automatic segmentation method for CFU counting in single plate-serial dilution

(2019) Dimitria T. Boukouvalas et al.   CHEMOMETRICS AND INTELLIGENT LABORATORY SYSTEMS

Simultaneously Detecting and Counting Dense Vehicles From Drone Images

(2019) Wei Li et al.   IEEE TRANSACTIONS ON INDUSTRIAL ELECTRONICS

Environmental microorganism classification using conditional random fields and deep convolutional neural networks

(2018) Sergey Kosov et al.   PATTERN RECOGNITION

Automated counting of bacterial colonies on agar plates based on images captured at near-infrared light

(2018) Guozhen Zhu et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Vision improvement system using image processing technique for adverse weather condition of opencast mines

(2018) Debashis Chatterjee et al.   International Journal of Mining Reclamation and Environment

Origin and evolution of pathogenic coronaviruses

(2018) Jie Cui et al.   NATURE REVIEWS MICROBIOLOGY

Digital, Rapid, Accurate, and Label-Free Enumeration of Viable Microorganisms Enabled by Custom-Built On-Glass-Slide Culturing Device and Microscopic Scanning

(2018) Donghui Song et al.   SENSORS

A smart device application for the automated determination of E. coli colonies on agar plates

(2017) Jonas Austerjost et al.   ENGINEERING IN LIFE SCIENCES

MicroCount: Free Software For Automated Microorganism Colony Counting By Computer

(2017) Alisson Amorim Siqueira et al.   IEEE Latin America Transactions

Bacterial colony counting with Convolutional Neural Networks in Digital Microbiology Imaging

(2017) Alessandro Ferrari et al.   PATTERN RECOGNITION

Modification of a High-Throughput Automatic Microbial Cell Enumeration System for Shipboard Analyses

(2016) Christin M. Bennke et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Automatic image classification for the urinoculture screening

(2016) Paolo Andreini et al.   COMPUTERS IN BIOLOGY AND MEDICINE

Image analysis and machine learning in digital pathology: Challenges and opportunities

(2016) Anant Madabhushi et al.   MEDICAL IMAGE ANALYSIS

High-Throughput Method for Automated Colony and Cell Counting by Digital Image Analysis Based on Edge Detection

(2016) Priya Choudhry   PLoS One

Ultrastructural Characterization of the Lower Motor System in a Mouse Model of Krabbe Disease

(2016) Valentina Cappello et al.   Scientific Reports

Automatic Counting and Classification of Bacterial Colonies Using Hyperspectral Imaging

(2015) Seung-Chul Yoon et al.   Food and Bioprocess Technology

Automated counting of bacterial colonies by image analysis

(2015) Pei-Ju Chiang et al.   JOURNAL OF MICROBIOLOGICAL METHODS

An Algorithm for Counting Microorganisms in Digital Images

(2014) Jayme Garcia Arnal Barbedo   IEEE Latin America Transactions

An automated method for the quantification of moving predators such as rotifers in biofilms by image analysis

(2014) T. Saur et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Optimization of an automatic counting system for the quantification ofStaphylococcus epidermidiscells in biofilms

(2013) Ana Isabel Freitas et al.   JOURNAL OF BASIC MICROBIOLOGY

Urban wastewater treatment plants as hotspots for antibiotic resistant bacteria and genes spread into the environment: A review

(2013) L. Rizzo et al.   SCIENCE OF THE TOTAL ENVIRONMENT

A Review on Methods for Automatic Counting of Objects in Digital Images

(2012) Jayme Garcia Arnal Barbedo   IEEE Latin America Transactions

Noise-free accurate count of microbial colonies by time-lapse shadow image analysis

(2012) Hiroyuki Ogawa et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Automated Counting of Bacterial Colony Forming Units on Agar Plates

(2012) Silvio D. Brugger et al.   PLoS One

Characteristic analysis of Otsu threshold and its applications

(2011) Xiangyang Xu et al.   PATTERN RECOGNITION LETTERS

Automated Quantification and Sizing of Unbranched Filamentous Cyanobacteria by Model-Based Object-Oriented Image Analysis

(2010) M. Zeder et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Low-cost, high-throughput, automated counting of bacterial colonies

(2010) Matthew L. Clarke et al.   CYTOMETRY PART A

Single-cell bacteria growth monitoring by automated DEP-facilitated image analysis

(2010) Ingmar Peitz et al.   LAB ON A CHIP

Image processing guided analysis for estimation of bacteria colonies number by means of optical transforms

(2010) Igor Buzalewicz et al.   OPTICS EXPRESS

Optimal MLP neural network classifier for fault detection of three phase induction motor

(2009) Vilas N. Ghate et al.   EXPERT SYSTEMS WITH APPLICATIONS

An automated bacterial colony counting and classification system

(2009) Wei-Bang Chen et al.   INFORMATION SYSTEMS FRONTIERS

Automatic counting of FISH-labeled microbes by an LED illuminated detecting apparatus

(2008) Masahiko NISHIMURA et al.   FISHERIES SCIENCE

A Novel Computational Approach for Simultaneous Tracking and Feature Extraction of C. elegans Populations in Fluid Environments

(2008) G. Tsechpenakis et al.   IEEE TRANSACTIONS ON BIOMEDICAL ENGINEERING

Improved detection of soil microorganisms using fluorescence in situ hybridization (FISH) and catalyzed reporter deposition (CARD-FISH)

(2008) Thilo Eickhorst et al.   SOIL BIOLOGY & BIOCHEMISTRY

Image segmentation evaluation: A survey of unsupervised methods

(2007) Hui Zhang et al.   COMPUTER VISION AND IMAGE UNDERSTANDING