| AlignedPairs {GraphAlignment} | R Documentation |
Create a matrix of pairs of aligned nodes from networks A and B using the permutation vector P, where P is in the format returned by AlignNetworks().
AlignedPairs(A, B, P)
A |
adjacency matrix for network A |
B |
adjacency matrix for network B |
P |
permutation vector to be used as the alignment |
The return value is a matrix with two columns. The number of rows is equal to the number of aligned node pairs. Each row in the matrix denotes a pair of aligned nodes. In each row, the first element (index 1) is the label of a node in network A, and the second element (index 2) is the label of a node in network B.
ex<-GenerateExample(dimA=22, dimB=22, filling=.5, covariance=.6,
symmetric=TRUE, numOrths=10, correlated=seq(1,18))
pinitial<-InitialAlignment(psize=34, r=ex$r, mode="reciprocal")
lookupLink<-seq(-2,2,.5)
linkParams<-ComputeLinkParameters(ex$a, ex$b, pinitial, lookupLink)
lookupNode<-c(-.5,.5,1.5)
nodeParams<-ComputeNodeParameters(dimA=22, dimB=22, ex$r,
pinitial, lookupNode)
al<-AlignNetworks(A=ex$a, B=ex$b, R=ex$r, P=pinitial,
linkScore=linkParams$ls,
selfLinkScore=linkParams$ls,
nodeScore1=nodeParams$s1, nodeScore0=nodeParams$s0,
lookupLink=lookupLink, lookupNode=lookupNode,
bStart=.1, bEnd=30,
maxNumSteps=50)
alignedPairs<-AlignedPairs(A=ex$a, B=ex$b, al)