GEOexplorer

This is the development version of GEOexplorer; for the stable release version, see GEOexplorer.

GEOexplorer: a webserver for gene expression analysis and visualisation

Bioconductor version: Development (3.21)

GEOexplorer is a webserver and R/Bioconductor package and web application that enables users to perform gene expression 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] (ORCID: ), Rafael Henkin [ctb, ths] (ORCID: ), Alfredo Iacoangeli [ctb, ths] (ORCID: ), Fabrizio Smeraldi [ctb, ths] (ORCID: ), Michael Barnes [ctb, ths] (ORCID: )

Maintainer: Guy Hunt <guy.hunt at kcl.ac.uk>

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

Installation

To install this package, start R (version "4.5") and enter:


if (!require("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")

GEOexplorer	HTML	R Script
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DifferentialExpression, GeneExpression, MicroRNAArray, Microarray, RNASeq, Software, Transcriptomics, mRNAMicroarray
Version	1.13.0
In Bioconductor since	BioC 3.14 (R-4.1) (3 years)
License	GPL-3
Depends	shiny, limma, Biobase, plotly, enrichR, R (>= 4.1.0)
Imports	DT, XML, httr, sva, xfun, edgeR, htmltools, factoextra, heatmaply, pheatmap, scales, shinyHeatmaply, shinybusy, ggplot2, stringr, umap, GEOquery, impute, grDevices, stats, graphics, markdown, knitr, utils, xml2, R.utils, readxl, shinycssloaders, car
System Requirements
URL	https://github.com/guypwhunt/GEOexplorer/
Bug Reports	https://github.com/guypwhunt/GEOexplorer/issues

Suggests	rmarkdown, usethis, testthat (>= 3.0.0)
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	GEOexplorer_1.13.0.tar.gz
Windows Binary (x86_64)
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/GEOexplorer
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/GEOexplorer
Bioc Package Browser	https://code.bioconductor.org/browse/GEOexplorer/
Package Short Url	https://bioconductor.org/packages/GEOexplorer/
Package Downloads Report	Download Stats