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WGCNA (version 1.63)

scaleFreeFitIndex: Calculation of fitting statistics for evaluating scale free topology fit.

Description

The function scaleFreeFitIndex calculates several indices (fitting statistics) for evaluating scale free topology fit. The input is a vector (of connectivities) k. Next k is discretized into nBreaks number of equal-width bins. Let's denote the resulting vector dk. The relative frequency for each bin is denoted p.dk.

Usage

scaleFreeFitIndex(k, nBreaks = 10, removeFirst = FALSE)

Arguments

k

numeric vector whose components contain non-negative values

nBreaks

positive integer. This determines the number of equal width bins.

removeFirst

logical. If TRUE then the first bin will be removed.

Value

Data frame with columns

Rsquared.SFT

the model fitting index (R.squared) from the following model lm(log.p.dk ~ log.dk)

slope.SFT

the slope estimate from model lm(log(p(k))~log(k))

truncatedExponentialAdjRsquared

the adjusted R.squared measure from the truncated exponential model given by lm2 = lm(log.p.dk ~ log.dk + dk).