Bioconductor – GEOexplorer (development version)

DOI: 10.18129/B9.bioc.GEOexplorer  

 

This is the development version of GEOexplorer; to use it, please install the devel version of Bioconductor.

GEOexplorer: an R/Bioconductor package for gene expression analysis and visualisation

Bioconductor version: Development (3.14)

GEOexplorer is a Shiny app that enables exploratory data analysis and differential gene expression of gene expression analysis on microarray gene expression datasets held on the GEO database. The outputs are interactive graphs that enable users to explore the results of the analysis. The development of GEOexplorer was made possible because of the excellent code provided by GEO2R (https: //www.ncbi.nlm.nih.gov/geo/geo2r/).

Author: Guy Hunt [aut, cre] , Fabrizio Smeraldi [ctb, ths], Michael Barnes [ctb, ths] , Rafael Henkin [ctb, ths]

Maintainer: Guy Hunt <guypwhunt1992 at gmail.com>

Citation (from within R,
enter citation("GEOexplorer")):

Installation

To install this package, start R (version
“4.1”) and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("GEOexplorer")

For older versions of R, please refer to the appropriate
Bioconductor release.

Documentation

To view documentation for the version of this package installed
in your system, start R and enter:

browseVignettes("GEOexplorer")

 

Details

biocViews DifferentialExpression, GeneExpression, MicroRNAArray, Microarray, Software, mRNAMicroarray
Version 0.99.26
In Bioconductor since BioC 3.14 (R-4.1)
License GPL-3
Depends shiny, limma, Biobase, plotly
Imports DT, htmltools, factoextra, heatmaply, maptools, pheatmap, scales, shinyHeatmaply, shinybusy, shinyBS, ggplot2, stringr, umap, GEOquery, impute, grDevices, stats, graphics, utils, vembedr
LinkingTo
Suggests rmarkdown, knitr, usethis, testthat (>= 3.0.0)
SystemRequirements
Enhances
URL github.com/guypwhunt/GEOexplorer/
BugReports github.com/guypwhunt/GEOexplorer/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow
Installation
instructions to use this
package in your R session.


Read more here: Source link