pathRender: Render molecular pathways
Version 1.44.0

build graphs from pathway databases, render them by Rgraphviz.

AuthorLi Long <lilong@isb-sib.ch>
Bioconductor views GraphAndNetwork Pathways Visualization
Date of publicationNone
MaintainerVince Carey <stvjc@channing.harvard.edu>
LicenseLGPL
Version1.44.0
URL http://www.bioconductor.org
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("pathRender")

Popular man pages

coloredGraph-class: Class "coloredGraph"
colorNodes: attach node coloring information to a graphNEL instance
graphcMAP: obtain a graph object corresponding to a cMAP pathway
plotExGraph: plot a gene network, coloring nodes according to relative...
pwayGraph-class: Class "pwayGraph" - extension to graphNEL for pathway...
reduceES: collapse the assay values in an ExpressionSet to a set of...
rendercMAP: Render pathways from cMAP
See all...

All man pages Function index File listing

Man pages

coloredGraph-class: Class "coloredGraph"
colorNodes: attach node coloring information to a graphNEL instance
graphcMAP: obtain a graph object corresponding to a cMAP pathway
plotExGraph: plot a gene network, coloring nodes according to relative...
pwayGraph-class: Class "pwayGraph" - extension to graphNEL for pathway...
reduceES: collapse the assay values in an ExpressionSet to a set of...
rendercMAP: Render pathways from cMAP

Functions

aggFeatures Source code
colorNodes Man page
colorNodes,graphNEL,numeric,character,function-method Man page
coloredGraph-class Man page
featNamesFromAnno Source code
graphcMAP Man page Source code
infoOnecMAPInteraction Source code
plot,coloredGraph,ANY-method Man page
plot,pwayGraph,ANY-method Man page
plotExGraph Man page Source code
pwayGraph-class Man page
pwayRendAttrs Man page Source code
quantizeByRow Source code
reduceES Man page Source code
renderOnecMAPInteraction Source code
renderOnecMAPPathway Source code
rendercMAPPathway Man page Source code
revAnnoEnv Source code

Files

DESCRIPTION
NAMESPACE
NEWS
R
R/cMAPPathway.R
R/colG.R
R/graphcMAP.R
R/plotExG.R
R/pwayGraph.R
R/rendercMAP.R
build
build/vignette.rds
inst
inst/doc
inst/doc/pathRender.R
inst/doc/pathRender.Rnw
inst/doc/pathRender.pdf
inst/doc/plotExG.R
inst/doc/plotExG.Rnw
inst/doc/plotExG.pdf
inst/misc
inst/testing
inst/testing/plotExG.Rnw
man
man/colorNodes.Rd
man/coloredGraph-class.Rd
man/graphcMAP.Rd
man/plotExGraph.Rd
man/pwayGraph-class.Rd
man/reduceES.Rd
man/rendercMAP.Rd
test
test/testBioPathway.R
test/testKeggPathway.R
vignettes
vignettes/pathRender.Rnw
vignettes/plotExG.Rnw
vignettes/pwayRendAttrs.R
pathRender documentation built on May 20, 2017, 9:45 p.m.

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