gemma.R: an R Wrapper for the Gemma API

This is an R wrapper for Gemma’s RESTful API. Gemma is a web site, database and a set of tools for the meta-analysis, re-use and sharing of genomics data, currently primarily targeted at the analysis of gene expression profiles. Gemma contains data from thousands of public studies, referencing thousands of published papers.

Installation instructions

Development

The current development version of gemma.R can be installed with:

if (!requireNamespace("devtools", quietly = TRUE)) {
    install.packages("devtools")
}
devtools::install_github("PavlidisLab/gemma.R")

Bioconductor (not available yet)

You can install gemma.R through Bioconductor with the following code:

# if (!requireNamespace("BiocManager", quietly = TRUE)) {
#     install.packages("BiocManager")
# }
# 
# BiocManager::install("gemma.R")

Usage

To get started with gemma.R, read the vignette.

Citation

To cite Gemma, please use: Lim, N. et al., Curation of over 10 000 transcriptomic studies to enable data reuse, Database, 2021.

Code of Conduct

Please note that gemma.R is released with the Bioconductor Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.