pathRender: Render molecular pathways

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build graphs from pathway databases, render them by Rgraphviz.

Author
Li Long <lilong@isb-sib.ch>
Date of publication
None
Maintainer
Vince Carey <stvjc@channing.harvard.edu>
License
LGPL
Version
1.42.0
URLs

View on Bioconductor

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

Files in this package

pathRender/DESCRIPTION
pathRender/NAMESPACE
pathRender/NEWS
pathRender/R
pathRender/R/cMAPPathway.R
pathRender/R/colG.R
pathRender/R/graphcMAP.R
pathRender/R/plotExG.R
pathRender/R/pwayGraph.R
pathRender/R/rendercMAP.R
pathRender/build
pathRender/build/vignette.rds
pathRender/inst
pathRender/inst/doc
pathRender/inst/doc/pathRender.R
pathRender/inst/doc/pathRender.Rnw
pathRender/inst/doc/pathRender.pdf
pathRender/inst/doc/plotExG.R
pathRender/inst/doc/plotExG.Rnw
pathRender/inst/doc/plotExG.pdf
pathRender/inst/misc
pathRender/inst/testing
pathRender/inst/testing/plotExG.Rnw
pathRender/man
pathRender/man/colorNodes.Rd
pathRender/man/coloredGraph-class.Rd
pathRender/man/graphcMAP.Rd
pathRender/man/plotExGraph.Rd
pathRender/man/pwayGraph-class.Rd
pathRender/man/reduceES.Rd
pathRender/man/rendercMAP.Rd
pathRender/test
pathRender/test/testBioPathway.R
pathRender/test/testKeggPathway.R
pathRender/vignettes
pathRender/vignettes/pathRender.Rnw
pathRender/vignettes/plotExG.Rnw
pathRender/vignettes/pwayRendAttrs.R