GEOexplorer (original) (raw)

This is the released version of GEOexplorer; for the devel version, seeGEOexplorer.

GEOexplorer: a webserver for gene expression analysis and visualisation

Bioconductor version: Release (3.20)

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] , Rafael Henkin [ctb, ths] , Alfredo Iacoangeli [ctb, ths] , Fabrizio Smeraldi [ctb, ths] , Michael Barnes [ctb, ths]

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

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

Installation

To install this package, start R (version "4.4") and enter:


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

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, RNASeq, Software, Transcriptomics, mRNAMicroarray
Version 1.12.0
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

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Suggests rmarkdown, usethis, testthat (>= 3.0.0)
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Package Archives

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

Source Package GEOexplorer_1.12.0.tar.gz
Windows Binary (x86_64) GEOexplorer_1.12.0.zip
macOS Binary (x86_64) GEOexplorer_1.12.0.tgz
macOS Binary (arm64) GEOexplorer_1.11.0.tgz
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/
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