DESeq2Shiny: Shiny app that wraps the DESeq2 R package

Introduction

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This Shiny app is a wrapper around DESeq2, an R package for "Differential gene expression analysis based on the negative binomial distribution".

It is meant to provide an intuitive interface for researchers to easily upload, analyze, visualize, and explore RNAseq count data interactively with no prior programming knowledge in R.

This tool supports simple or multi-factorial experimental design. It also allows for exploratory analysis when no replicates are available.

Online/Demo:

You can try it online at http://nasqar.abudhabi.nyu.edu/deseq2shiny

Pre-print:

NASQAR: A web-based platform for High-throughput sequencing data analysis and visualization

Features

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Various visualizations and output data are included:

• Clustering

  • R-Log, Variance Stabilizing Transformation (VST) output matrices
  • PCA plots, Heatmaps

• Differential Expression

  • Comparison Data (logFC, p-value, etc, sample vs sample, etc …)
  • MA plots

• Gene Expression

  • Gene Boxplots

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