User Guide

Introduction


This is a web-based interactive application that wraps the popular clusterProfiler package which implements methods to analyze and visualize functional profiles of genomic coordinates, gene and gene clusters.

Users can upload their own differential gene expression (DGE) data from DESeq2 or import data from the upstream Deseq2Shiny app.

This app allows for quick and easy Gene Set Enrichment Analysis (GSEA) of GO-Terms and KEGG pathways.

It is meant to provide an intuitive interface for researchers to easily upload and perform GSEA on RNA-seq data interactively with no prior programming knowledge in R.

Visuals produced include dot plots, category net plots, enrichment map plots, GO induced graphs, gsea plots, and enriched KEGG pathway plots using the Pathview package.

The application follows this tutorial

See Figure 1 below for example output plots (Click on image to enlarge).


Figure 1: Example plots