GEOexplorer
This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see GEOexplorer.
GEOexplorer: an R/Bioconductor package for gene expression analysis and visualisation
Bioconductor version: 3.16
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] 
, Rafael Henkin [ctb, ths] , Fabrizio Smeraldi [ctb, ths] , Michael Barnes [ctb, ths]
Maintainer: Guy Hunt <guypwhunt1992 at gmail.com>
citation("GEOexplorer")):
Installation
To install this package, start R (version "4.2") 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")| my-vignette | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DifferentialExpression, GeneExpression, MicroRNAArray, Microarray, Software, mRNAMicroarray |
| Version | 1.4.0 |
| In Bioconductor since | BioC 3.14 (R-4.1) (2.5 years) |
| License | GPL-3 |
| Depends | shiny, limma, Biobase, plotly, shinyBS |
| Imports | DT, htmltools, factoextra, heatmaply, maptools, pheatmap, scales, shinyHeatmaply, shinybusy, ggplot2, stringr, umap, GEOquery, impute, grDevices, stats, graphics, utils |
| System Requirements | |
| URL | https://github.com/guypwhunt/GEOexplorer/ |
| Bug Reports | https://github.com/guypwhunt/GEOexplorer/issues |
See More
| Suggests | rmarkdown, knitr, 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_1.4.0.tar.gz |
| Windows Binary | GEOexplorer_1.4.0.zip (64-bit only) |
| macOS Binary (x86_64) | GEOexplorer_1.4.0.tgz |
| macOS Binary (arm64) | GEOexplorer_1.4.0.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/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.16 | Source Archive |