WGCNA (version 1.72-5)

scaleFreePlot: 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 = "", ...)

Value

None.

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.

Author

Steve Horvath

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.

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

See Also

softConnectivity for connectivity calculation in weigheted networks.