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SubpathwayLNCE (version 1.0)

Identify Signal Subpathways Competitively Regulated by LncRNAs Based on ceRNA Theory

Description

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

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Version

Install

install.packages('SubpathwayLNCE')

Monthly Downloads

22

Version

1.0

License

GPL (>= 2)

Maintainer

Xinrui Shi

Last Published

January 19th, 2016

Functions in SubpathwayLNCE (1.0)

getLncGenePairs

Get the co-express lncRNA-mRNA interactions
getBackgroundLnc

Get the background of molecules
envData

The variables in the environment variable envData of the system
SubpathwayLNCE-internal

SubpathwayLNCE internal functions
getInteUMGraph

Get the reconstructed condition-specific lncRNA-regulated signal pathways
getInteGraphList

Get the reconstructed signal pathway graphs
identifyLncGraphW

Annotate and identify subpathways
plotGraphL

Visualize a pathway graph
GetExampleData

Get the environment data
plotAnnGraph

Visualize annotated pathway graphs
printGraphW

Print the results of graph annotation and identification
getLocSubGraphLnc

Get the located signal subpathways