pySeqRNA: an automated Python package for RNASeq data analysis

Author:Naveen Duhan Date:Apr 24, 2023 Version:latest

Introduction

pySeqRNA is an automated python package for RNASeq data analysis.

Today, massive amounts of data are generated by Next-Generation Sequencing (NGS) technologies. In recent years, many algorithms, statistical methods, and software tools have been developed to perform the individual analysis steps of various NGS applications. However, streamlined analysis remains a significant barrier to effectively utilizing the technology. We have developed a Python package (pySeqRNA) that allows fast, efficient, manageable, and reproducible RNA-Seq analysis. It effectively uses current software and tools with newly written Python scripts without confining users to a collection of pre-defined methods and environments by combining many command-line tools and custom Python scripts.

Keywords Transcriptomics, pySeqRNA, RNA sequencing, differential gene expression

Examples and Case-Studies

Example usage and case-studies with real data is provided at

Contents

• Installation
• Modules
  • Introduction
  • Quality Submodules
  • Alignment Submodules
  • Quantification Submodules
  • Differential Genes Submodules
  • Functional Annotation Submodules
  • Utility Submodules
• Usage

Indices and tables

• Index
• Module Index
• Search Page