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IMAP: Integrated Microbiome Analysis Pipelines: End-to-End Practical User Guides Using Integrated Approaches

1 Retrieving Fastq Sequences from SRA Database

1.1 Introduction

In this segment, we focus on retrieving Fastq sequences from the Sequence Read Archive (SRA) Database. This tutorial will provide you with a step-by-step demonstration of efficiently acquiring microbiome Fastq sequences from the SRA database.

1.2 Preface

Microbiome research often involves analyzing Fastq sequences obtained from various sources, including sequencing platforms and public repositories like the SRA. The SRA serves as a centralized repository housing a vast amount of raw sequencing data, making it a valuable resource for researchers.

1.3 Objective

The objective of this tutorial is to equip you with the knowledge and skills to navigate the SRA database effectively and retrieve Fastq sequences for microbiome analysis. We will follow a standardized approach provided by the SRA, ensuring consistency in data retrieval and reporting.

1.4 Key Highlights

  • Understanding the role of the SRA database in microbiome research.
  • Learning the standardized approach for retrieving Fastq sequences from the SRA.
  • Enhancing consistency and reliability in subsequent microbiome analyses.