WGCNA (version 1.43)

branchEigengeneDissim: Branch dissimilarity based on eigennodes (eigengenes).

Description

Calculation of branch dissimilarity based on eigennodes (eigengenes) in single set and multi-data situations. This function is used as a plugin for the dynamicTreeCut package and the user should not call this function directly. This function is experimental and subject to change.

Usage

branchEigengeneDissim(
  expr, 
  branch1, branch2, 
  corFnc = cor, corOptions = list(use = "p"), 
  signed = TRUE, ...)
mtd.branchEigengeneDissim(
  multiExpr, 
  branch1, branch2,
  corFnc = cor, corOptions = list(use = 'p'),
  consensusQuantile = 0, 
  signed = TRUE, reproduceQuantileError = FALSE, ...)

Arguments

expr

Expression data.

multiExpr

Expression data in multi-set format.

branch1

Branch 1.

branch2

Branch 2.

corFnc

Correlation function.

corOptions

Other arguments to the correlation function.

consensusQuantile

Consensus quantile.

signed

Should the network be considered signed?

reproduceQuantileError

Logical: should an error in the calculation from previous versions, which caused the true consensus quantile to be 1-consensusQuantile rather than consensusQuantile, be reproduced? Use this only to reproduce old calculations.

...

Other arguments for compatibility; currently unused.

Value

• A single number or a list containing details of the calculation.