SubpathwayLNCE: Identify Signal Subpathways Competitively Regulated by LncRNAs Based on ceRNA Theory
Version 1.0

Identify dysfunctional subpathways competitively regulated by lncRNAs through integrating lncRNA-mRNA expression profile and pathway topologies.

AuthorXinrui Shi, Chunquan Li and Xia Li
Bioconductor views LncRNAs Statistics SuPathways ceRNA enrichment analysis
Date of publication2016-01-19 08:17:59
MaintainerXinrui Shi <xinrui103@163.com>
LicenseGPL (>= 2)
Version1.0
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("SubpathwayLNCE")

Popular man pages

envData: The variables in the environment variable 'envData' of the...
getExampleData: Get the environment data
getInteGraphList: Get the reconstructed signal pathway graphs
getLncGenePairs: Get the co-express lncRNA-mRNA interactions
getLocSubGraphLnc: Get the located signal subpathways
plotAnnGraph: Visualize annotated pathway graphs
plotGraphL: Visualize a pathway graph
See all...

All man pages Function index File listing

Man pages

envData: The variables in the environment variable 'envData' of the...
getBackgroundLnc: Get the background of molecules
getExampleData: Get the environment data
getInteGraphList: Get the reconstructed signal pathway graphs
getInteUMGraph: Get the reconstructed condition-specific lncRNA-regulated...
getLncGenePairs: Get the co-express lncRNA-mRNA interactions
getLocSubGraphLnc: Get the located signal subpathways
identifyLncGraphW: Annotate and identify subpathways
plotAnnGraph: Visualize annotated pathway graphs
plotGraphL: Visualize a pathway graph
printGraphW: Print the results of graph annotation and identification
SubpathwayLNCE-internal: SubpathwayLNCE internal functions

Functions

ExpProcess Man page Source code
GetExampleData Man page Source code
Getenvir Man page Source code
envData Man page
getBackgroundLnc Man page Source code
getEdgeLabel Man page Source code
getEdgeLty Man page Source code
getInteGraphList Man page Source code
getInteUMGraph Man page Source code
getKGeneFromGene Man page Source code
getLayout Man page Source code
getLncGenePairs Man page Source code
getLocSubGraphLnc Man page Source code
getNodeLabel Man page Source code
getOneNodePath Man page Source code
getSymbolFromGene Man page Source code
identifyLncGraphW Man page Source code
initialize Man page Source code
plotAnnGraph Man page Source code
plotGraphL Man page Source code
printGraphW Man page Source code

Files

inst
inst/doc
inst/doc/SubpathwayLNCE.Rnw
inst/doc/SubpathwayLNCE.pdf
inst/doc/SubpathwayLNCE.R
NAMESPACE
data
data/envData.rda
data/datalist
R
R/getLocSubGraphLnc.r
R/getBackgroundLnc.r
R/getEdgeLabel.r
R/identifyLncGraphW.r
R/getExampleData.r
R/getKGeneFromGene.r
R/getLncGenePairs.r
R/getOneNodePath.r
R/getEdgeLty.r
R/plotAnnGraph.r
R/getEnvironmentData.r
R/printGraphW.r
R/getNodeLabel.r
R/getInteGraphList.r
R/getInteUMGraph.r
R/ExpProcess.r
R/plotGraphL.r
R/getLayout.r
R/getSymbolFromGene.r
vignettes
vignettes/SubpathwayLNCE.Rnw
MD5
build
build/vignette.rds
DESCRIPTION
man
man/getExampleData.Rd
man/getBackgroundLnc.Rd
man/identifyLncGraphW.Rd
man/plotGraphL.Rd
man/envData.Rd
man/SubpathwayLNCE-internal.Rd
man/getLncGenePairs.Rd
man/printGraphW.Rd
man/getInteUMGraph.Rd
man/getInteGraphList.Rd
man/getLocSubGraphLnc.Rd
man/plotAnnGraph.Rd
SubpathwayLNCE documentation built on May 19, 2017, 11:10 a.m.

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