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GeneExpressionSignature

This is the development version of GeneExpressionSignature; for the stable release version, see GeneExpressionSignature.

Gene Expression Signature based Similarity Metric


Bioconductor version: Development (3.19)

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")):

Installation

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


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews GeneExpression, Software
Version 1.49.0
In Bioconductor since BioC 2.9 (R-2.14) (12.5 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/
See More
Suggests apcluster, GEOquery, knitr, rmarkdown, BiocStyle
Linking To
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Depends On Me
Imports Me
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Package Archives

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

Source Package GeneExpressionSignature_1.49.0.tar.gz
Windows Binary GeneExpressionSignature_1.49.0.zip
macOS Binary (x86_64) GeneExpressionSignature_1.49.0.tgz
macOS Binary (arm64) GeneExpressionSignature_1.49.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GeneExpressionSignature
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GeneExpressionSignature
Bioc Package Browser https://code.bioconductor.org/browse/GeneExpressionSignature/
Package Short Url https://bioconductor.org/packages/GeneExpressionSignature/
Package Downloads Report Download Stats