GeneExpressionSignature: an R package for discovering functional connections using gene expression signatures

This package gives the implementations of the gene expression signature and its distance to each. Gene expression signature is represented as a list of genes whose expression is correlated with a biological state of interest. And its distance is defined using a nonparametric, rank-based pattern-matching strategy based on the Kolmogorov-Smirnov statistic. Gene expression signature and its distance can be used to detect similarities among the signatures of drugs, diseases, and biological states of interest。

Installation

You can install the released version of GeneExpressionSignature from Bioconductor with:

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

Or install the development version from github

if (!requireNamespace("remotes", quietly=TRUE))
    install.packages("remotes")
remotes::install_github("yiluheihei/GeneExpressionSignature")

Citation

Authors: Yang Cao https://caoyang.tech

If you use this package in your research, please cite:

Li F, Cao Y, Han L, Cui X, Xie D, Wang S, Bo X. GeneExpressionSignature: an R package for discovering functional connections using gene expression signatures. Omics: a journal of integrative biology, 2013 17(2):116-8.

Contribution

Your contributions are always welcome!

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