transf: Transformation

In AlzbetaG/Metabol: The statistical analysis of metabolomic data

Description

Transform data according to chosen function.

Usage

transf(data, name, tsf = "clr")

Arguments

data	Data table with variables (metabolites) in columns. Samples in rows are sorted according to specific groups.
name	A character string or expression indicating a name of data set. It occurs in names of every output.
tsf	Data transformation must be defined by "clr" (default), "log", "log10", "PQN", "lnPQN", "pareto" or "none". See Details.

Details

Data transformation: with "clr" clr trasformation is used (see References), with "log" natural logarithm is used, with "log10" decadic logarithm is used, with "pareto" data are only scaled by Pareto scaling, with "PQN" probabilistic quotient normalization is done, with "lnPQN" natural logarithm of PQN transformed data is done, with "none" no tranformation is done.

Up to twenty different groups can be distinguished in data (including QCs).

Value

Excel file with data transformed according to chosen function.

References

Aitchison, J. (1986) The Statistical Analysis of Compositional Data Monographs on Statistics and Applied Probability. Chapman & Hall Ltd., London (UK). p. 416.

Examples

data=metabol
name="Metabolomics"    #name of the project
groupnames=c("Con","Pat","QC")
transf(data,name)

AlzbetaG/Metabol documentation built on May 31, 2019, 12:39 a.m.