This function analyzes a bi-partite network.
Usage
monsterTransformationMatrix(
network.1,
network.2,
by.tfs = TRUE,
standardize = FALSE,
remove.diagonal = TRUE,
method = "ols"
)Arguments
- network.1
starting network, a genes by transcription factors data.frame with scores for the existence of edges between
- network.2
final network, a genes by transcription factors data.frame with scores for the existence of edges between
- by.tfs
logical indicating a transcription factor based transformation. If false, gives gene by gene transformation matrix
- standardize
logical indicating whether to standardize the rows and columns
- remove.diagonal
logical for returning a result containing 0s across the diagonal
- method
character specifying which algorithm to use, default='ols'
Examples
data(yeast)
cc.net.1 <- monsterMonsterNI(yeast$motif,yeast$exp.cc[1:1000,1:20])
cc.net.2 <- monsterMonsterNI(yeast$motif,yeast$exp.cc[1:1000,31:50])
monsterTransformationMatrix(cc.net.1, cc.net.2)