GeneExpressionSignature

This is the released version of GeneExpressionSignature; for the devel version, see GeneExpressionSignature.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11, 2.10, 2.9

Gene Expression Signature based Similarity Metric

Bioconductor version: Release (3.23)

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.

Author: Yang Cao [aut, cre], Fei Li [ctb], Lu Han [ctb]

Maintainer: Yang Cao <yiluheihei at gmail.com>

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

Yang Cao. GeneExpressionSignature: Gene Expression Signature based Similarity Metric. doi:10.18129/B9.bioc.GeneExpressionSignature, R package version 1.58.0, https://bioconductor.org/packages/GeneExpressionSignature.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

BiocManager::install("GeneExpressionSignature")

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("GeneExpressionSignature")

GeneExpressionSignature	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	GeneExpression, Software
Version	1.58.0
In Bioconductor since	BioC 2.9 (R-2.14) (15 years)
License	GPL-2
Depends	R (>= 4.0)
Imports	Biobase, stats, methods
System Requirements
URL	https://github.com/yiluheihei/GeneExpressionSignature
Bug Reports	https://github.com/yiluheihei/GeneExpressionSignature/issues/

Suggests	apcluster, GEOquery, knitr, rmarkdown, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	GeneExpressionSignature_1.58.0.tar.gz
Windows Binary (x86_64)	GeneExpressionSignature_1.58.0.zip
macOS Binary (big-sur-x86_64)	GeneExpressionSignature_1.58.0.tgz
macOS Binary (sonoma-arm64)	GeneExpressionSignature_1.58.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/GeneExpressionSignature
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/GeneExpressionSignature
Package Short Url	https://bioconductor.org/packages/GeneExpressionSignature/
Package Downloads Report	Download Stats