plot_softpowers: Calculate and plot soft thresholding power diagnostics
In mjdufort/WGCNAtools: Simplify use of WGCNA

View source: R/plot_softpowers.r

plot_softpowers

R Documentation

Calculate and plot soft thresholding power diagnostics

Description

Calculate and plot diagnostics for a range of values of the soft thresholding power, as described in the online WGCNA tutorials. It is a wrapper for WGCNA::pickSoftThreshold.

Usage

plot_softpowers(counts, powers = c(1:10, seq(from = 12, to = 20, by = 2)), 
  networkType = "unsigned", verbose = 5)

Arguments

`counts`	A matrix or data frame of counts, with genes in columns and samples in rows
`powers`	A vector of soft thresholding powers; passed to `WGCNA::pickSoftThreshold`
`networkType`	Character value, the network type, passed to `WGCNA::pickSoftThreshold`. Allowed values are (unique abbreviations of) "unsigned", "signed", "signed hybrid". See `WGCNA::adjacency`
`verbose`	Integer level of verbosity; passed to `WGCNA::pickSoftThreshold`