DAMIAN: A Comprehensive Online Platform for the Detection and Analysis of Viral and Microbial Infectious Agents using NGS Data

Abstract:

Next-generation sequencing (NGS) has revolutionized the field of genomics, allowing for rapid detection and analysis of infectious agents. However, the complexity of NGS data and the lack of user-friendly tools have limited the widespread adoption of these techniques. Here, we present DAMIAN (Detection & Analysis of viral and Microbial Infectious Agents by NGS), a comprehensive online platform designed to facilitate the identification and characterization of viral and microbial pathogens from NGS data. DAMIAN streamlines the process of data input, analysis, and visualization, making it accessible to researchers with varying levels of computational expertise.

Introduction:

1.1 Background and motivation

Discuss the challenges faced by researchers in the detection and analysis of viral and microbial infectious agents using NGS data.
Explain the need for a user-friendly, comprehensive online platform to address these challenges.

1.2 Overview of DAMIAN

Introduce DAMIAN as a solution to these challenges.
Briefly describe the features and functionality of DAMIAN.

Methods:

2.1 Data input and preprocessing

Explain how users can upload their NGS data to the platform.
Describe the preprocessing steps performed by DAMIAN, including quality control and adapter trimming.

2.2 Identification of infectious agents

Detail the algorithms and databases employed by DAMIAN to identify viral and microbial pathogens in the input data.

2.3 Data analysis and visualization

Discuss the various analysis and visualization tools available within DAMIAN, including phylogenetic analysis, genome assembly, and functional annotation.

Results:

3.1 Case studies

Present case studies showcasing the effectiveness and utility of DAMIAN in identifying and analyzing infectious agents from NGS data.

3.2 Comparison with existing tools

Compare the performance of DAMIAN with other available tools and platforms.

Discussion:

4.1 Advantages of DAMIAN

Highlight the benefits of using DAMIAN, such as ease of use, comprehensiveness, and accessibility.

4.2 Future developments and improvements

Discuss potential future enhancements to the platform, including the incorporation of new algorithms, databases, and analysis tools.

Conclusion:

Summarize the main points of the manuscript and reiterate the value of DAMIAN as a comprehensive online platform for the detection and analysis of viral and microbial infectious agents using NGS data.

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