README.md

In JoWatson2011/subcellularvis: What the Package Does (One Line, Title Case)

subcellularvis

The goal of subcellularvis is to simplify the interpretation of Gene Ontology Cellular Compartment enrichment analyses. The app is hosted here

Installation

You can install the released version of subcellularvis using devtools with:

devtools::install_github("jowatson2011/subcellularvis")

Running the Shiny App from Rstudio

This example shows you how to run a basic analysis.

Either through the Shiny app interface:

library(subcellularvis)

subcellularapp()

Or you can run analysis outside of the app:

genes <- c("MAPK1", "MAPK3")
comps <- compartmentData(genes)
runSubcellulaRvis(comps$enrichment, 
                  colScheme_low = "lightblue", 
                  colScheme_high = "darkblue")

# Use plotly for interactive visualisation
plotly::ggplotly(runSubcellulaRvis(comps$enrichment, 
                                   colScheme_low = "lightblue", 
                                   colScheme_high = "darkblue")
                                   )

JoWatson2011/subcellularvis documentation built on June 23, 2022, 2:09 p.m.