consensusAdjacency {MetNet}R Documentation

Create a consensus adjacency matrix of statistical adjacency matrices

Description

The function takes a list of parameters (l) as input and creates a consensus adjacency matrix from these adjacency matrices by calling the function consensus from the sna package. Depending on the chosen method in consensus, the threshold of the consensus adjacency matrix should be chosen accordingly to report a connection by different statistical methods.

Usage

consensusAdjacency(l, threshold=1, ...)

Arguments

l

list, each entry of the list contains an adjacency matrix

threshold

numeric, when combining the adjacency matrices the threshold parameter defines if an edge is reported or not. For method="central.graph" threshold is set to 1 by default. For other values of method, the value should be carefully defined by the user. If threshold is set to NULL (default), it will be set to 1 internally.

...

parameters passed to the function consensus in the sna package

Details

consensusAdjacency is a wrapper function of the consensus function of the sna package. For use of the parameters used in the consensus function, refer to ?sna::consensus.

Value

matrix, consensus matrix from adjacency matrices

Author(s)

Thomas Naake, thomasnaake@googlemail.com

Examples

data("x_test", package="MetNet")
x <- x_test[, 3:dim(x_test)[2]]
x <- as.matrix(x)
stat_adj_l <- createStatisticalAdjacencyList(x, c("pearson", "spearman"))
consensusAdjacency(stat_adj_l)
[Package MetNet version 1.2.0 Index]