MiMIR (version 1.5)

apply.scale: apply.scale

Description

Helper function created to scale the NH-metabolomics matrix samples

Usage

apply.scale(dat, MEAN, SD, quiet = TRUE)

Value

The matrix z-scaling the Nightingale-metabolomics dataset using the given Means and SDs

Arguments

dat

numeric data-frame with Nightingale-metabolomics

MEAN

numeric vector indicating the mean of the metabolites present in dat

SD

numeric vector indicating the standard deviations of the metabolites present in dat

quiet

Tlogical to suppress the messages in the console

References

This function is constructed to be able to apply the metaboAge as described in: van den Akker Erik B. et al. (2020) Metabolic Age Based on the BBMRI-NL 1H-NMR Metabolomics Repository as Biomarker of Age-related Disease. Circulation: Genomic and Precision Medicine, 13, 541-547, doi:10.1161/CIRCGEN.119.002610

See Also

QCprep, apply.fit, subset_metabolites_overlap, subset_samples_miss, subset_samples_zero, subset_samples_sd, impute_miss, and report.dim

Examples

if (FALSE) {
library(MiMIR)

#load the Nightignale metabolomics dataset
metabolic_measures <- read.csv("Nightingale_file_path",header = TRUE, row.names = 1)
#Apply the scaling to the metabolic features
mat <- apply.scale(metabolic_measures, MEAN=PARAM_metaboAge$MEAN, SD=PARAM_metaboAge$SD)
}