build_coexp_expressionSet {EGAD} | R Documentation |
The function generates a dense coexpression network from expression data stored in
the expressionSet data type. Correlation coefficicents are used as to weight the edges
of the nodes (genes). Calls build_coexp_network
.
build_coexp_expressionSet(exprsSet, gene.list, method = "spearman", flag = "rank")
exprsSet |
data class ExpressionSet |
gene.list |
array of gene labels |
method |
correlation method to use, default Spearman's rho |
flag |
string to indicate if the network should be ranked |
net Matrix symmetric
exprs <- matrix( rnorm(1000), ncol=10,byrow=TRUE) gene.list <- paste('gene',1:100, sep='') sample.list <- paste('sample',1:10, sep='') rownames(exprs) <- gene.list colnames(exprs) <- sample.list network <- build_coexp_expressionSet(exprs, gene.list, method='pearson')