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GraphAlignment (version 1.36.0)

GraphAlignment

Description

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))

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Version

Version

1.36.0

License

file LICENSE

Maintainer

Joern P Meier

Last Published

February 15th, 2017

Functions in GraphAlignment (1.36.0)

ComputeNodeParameters

Compute node parameters
ComputeLinkParameters

Compute link parameters
EncodeDirectedGraph

Encode directed graph
AlignedPairs

Get aligned node pairs
Trace

Calculate trace of a matrix
GetBinNumber

Get bin number
AlignNetworks

Align networks
Permute

Permute rows and columns of a matrix
ComputeScores

Compute scores
AnalyzeAlignment

Analyze an alignment
VectorToBin

Convert vector to bin representation
MatrixToBin

Convert matrix to bin representation
LinearAssignment

Solve linear assignment problem
GenerateExample

Generate example input data
InvertPermutation

Invert permutation
ComputeM

Compute score matrix M
CreateScoreMatrix

Create score matrix
InitialAlignment

Create initial alignment