estimate_variability: Stability analysis. Calculates average Pearson ' correlation...

In microbiome/microbiomeold: Tools for microbiome analysis

Description

Stability analysis. Calculates average Pearson ' correlation between samples in the input data and picks the lower ' triangular matrix to avoid duplicating the correlations. Returns correlations and stability estimate (average of the correlations). Can also be used to calculate stability between two data sets. Then provide two data sets as inputs.

Usage

estimate_variability(dat1, dat2 = NULL, method = "pearson")

Arguments

dat1	data matrix phylotypes vs. samples (in log10 scale)
dat2	Optional. Second data matrix phylotypes vs. samples. Provide this to calculate stability between two (paired) data sets.
method	Correlation method (see ?cor)

Value

List with correlations and astability estimate

Author(s)

Contact: Leo Lahti [e-mail]

References

See citation('microbiome')

Examples

data(peerj32)
  s <- estimate_variability(t(peerj32$microbes)[, 1:5])

microbiome/microbiomeold documentation built on May 22, 2019, 9:57 p.m.