GeneExpressionSignature: Gene Expression Signature based Similarity Metric

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.

AuthorYang Cao
Date of publicationNone
MaintainerYang Cao <yiluheihei@gmail.com>, Fei Li <pittacus@gmail.com>,Lu Han <hanl8910@gmail.com>
LicenseGPL-2
Version1.20.0

View on Bioconductor

Files

GeneExpressionSignature/DESCRIPTION
GeneExpressionSignature/NAMESPACE
GeneExpressionSignature/R
GeneExpressionSignature/R/FootruleMatrix.R GeneExpressionSignature/R/RankMerging.R GeneExpressionSignature/R/ScoreGSEA.R GeneExpressionSignature/R/ScorePGSEA.R GeneExpressionSignature/R/SignatureDistance.R GeneExpressionSignature/R/getRLs.R GeneExpressionSignature/R/integratePRL.R GeneExpressionSignature/R/krubor.R GeneExpressionSignature/R/quickenrichmentscore.R
GeneExpressionSignature/build
GeneExpressionSignature/build/vignette.rds
GeneExpressionSignature/data
GeneExpressionSignature/data/datalist
GeneExpressionSignature/data/exampleSet.rda
GeneExpressionSignature/inst
GeneExpressionSignature/inst/doc
GeneExpressionSignature/inst/doc/GeneExpressionSignature.R
GeneExpressionSignature/inst/doc/GeneExpressionSignature.Rnw
GeneExpressionSignature/inst/doc/GeneExpressionSignature.pdf
GeneExpressionSignature/inst/extdata
GeneExpressionSignature/inst/extdata/GSM118720.soft
GeneExpressionSignature/inst/extdata/GSM118721.soft
GeneExpressionSignature/man
GeneExpressionSignature/man/GeneExpressionSignature.Rd GeneExpressionSignature/man/RankMerging.Rd GeneExpressionSignature/man/ScoreGSEA.Rd GeneExpressionSignature/man/ScorePGSEA.Rd GeneExpressionSignature/man/SignatureDistance.Rd GeneExpressionSignature/man/exampleSet.Rd GeneExpressionSignature/man/getRLs.Rd
GeneExpressionSignature/vignettes
GeneExpressionSignature/vignettes/GeneExpressionSignature.Rnw
GeneExpressionSignature/vignettes/GeneExpressionSignature.bib
GeneExpressionSignature/vignettes/Thumbs.db
GeneExpressionSignature/vignettes/cluster.png

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