GraphAlignment: GraphAlignment

Graph alignment is an extension package for the R programming environment which provides functions for finding an alignment between two networks based on link and node similarity scores. (J. Berg and M. Laessig, "Cross-species analysis of biological networks by Bayesian alignment", PNAS 103 (29), 10967-10972 (2006))

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("GraphAlignment")
AuthorJoern P. Meier <mail@ionflux.org>, Michal Kolar, Ville Mustonen, Michael Laessig, and Johannes Berg.
Bioconductor views GraphAndNetwork Network
Date of publicationNone
MaintainerJoern P. Meier <mail@ionflux.org>
Licensefile LICENSE
Version1.38.0
http://www.thp.uni-koeln.de/~berg/GraphAlignment/

View on Bioconductor

Files

DESCRIPTION
LICENSE
NAMESPACE
R
R/GraphAlignment.R
build
build/vignette.rds
inst
inst/CITATION
inst/doc
inst/doc/GraphAlignment.R
inst/doc/GraphAlignment.Rnw
inst/doc/GraphAlignment.pdf
man
man/AlignNetworks.Rd man/AlignedPairs.Rd man/AnalyzeAlignment.Rd man/ComputeLinkParameters.Rd man/ComputeM.Rd man/ComputeNodeParameters.Rd man/ComputeScores.Rd man/CreateScoreMatrix.Rd man/EncodeDirectedGraph.Rd man/GenerateExample.Rd man/GetBinNumber.Rd man/InitialAlignment.Rd man/InvertPermutation.Rd man/LinearAssignment.Rd man/MatrixToBin.Rd man/Permute.Rd man/Trace.Rd man/VectorToBin.Rd
src
src/GA_alloc.c
src/GA_alloc.h
src/GA_matrix.c
src/GA_matrix.h
src/GA_matrix_R.c
src/GA_matrix_R.h
src/GA_message.c
src/GA_message.h
src/GA_vector.c
src/GA_vector.h
src/GA_vector_R.c
src/GA_vector_R.h
src/GraphAlignment.c
src/GraphAlignment.h
src/gnrl.h
src/lap.c
src/lap.h
vignettes
vignettes/GraphAlignment.Rnw
vignettes/a.pdf
vignettes/align_principle2b1.pdf
vignettes/align_principle2c1.pdf
vignettes/align_principle_short1.pdf
vignettes/binning-01a.pdf

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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