GraphAlignment (version 1.36.0)

ComputeNodeParameters: Compute node parameters

Description

Compute the optimal scoring parameters (node score) for a given alignment.

Usage

ComputeNodeParameters(dimA, dimB, R, P, lookupNode, clamp=TRUE)

Arguments

dimA

size of network A

dimB

size of network B

R

node similarity score matrix

P

permutation vector (see InitialAlignment, AlignNetworks)

lookupNode

node bin lookup table (see GetBinNumber)

clamp

clamp values to range when performing bin lookups

Value

The return value is list containing the node score vectors s0 and s1.

Details

This function computes optimal node score parameters for use with ComputeM and AlignNetworks. It takes the size of the networks, a matrix of node similarities R, an initial alignment P, and the lookup table for node binning, lookupNode, as parameters.

Examples

  ex<-GenerateExample(dimA=22, dimB=22, filling=.5, covariance=.6,
    symmetric=TRUE, numOrths=10, correlated=seq(1,18))
  
  pinitial<-InitialAlignment(psize=34, r=ex$r, mode="reciprocal")
  
  lookupNode<-c(-.5,.5,1.5)
  nodeParams<-ComputeNodeParameters(dimA=22, dimB=22, ex$r,
    pinitial, lookupNode)