R: Visual check of scale-free topology

scaleFreePlot {WGCNA}

R Documentation

Visual check of scale-free topology

Description

A simple visula check of scale-free network ropology.

Usage

scaleFreePlot(
  connectivity, 
  nBreaks = 10, 
  truncated = FALSE,  
  removeFirst = FALSE, 
  main = "", ...)

Arguments

`connectivity`	vector containing network connectivities.
`nBreaks`	number of breaks in the connectivity dendrogram.
`truncated`	logical: should a truncated exponential fit be calculated and plotted in addition to the linear one?
`removeFirst`	logical: should the first bin be removed from the fit?
`main`	main title for the plot.
`...`	other graphical parameter to the `plot` function.

Details

The function plots a log-log plot of a histogram of the given connectivities, and fits a linear model plus optionally a truncated exponential model. The R^2 of the fit can be considered an index of the scale freedom of the network topology.

Value

None.

Author(s)

Steve Horvath

References

Bin Zhang and Steve Horvath (2005) "A General Framework for Weighted Gene Co-Expression Network Analysis", Statistical Applications in Genetics and Molecular Biology: Vol. 4: No. 1, Article 17