scale_pareto: Scale intensities of features using Pareto scaling

In metamorphr: Tidy and Streamlined Metabolomics Data Workflows

Scale intensities of features using Pareto scaling

Description

Scales the intensities of all features using

\widetilde{x}_{ij}=\frac{x_{ij}-\overline{x}_{i}}{\sqrt{s_i}}

where \widetilde{x}_{ij} is the intensity of sample j, feature i after scaling, x_{ij} is the intensity of sample j, feature i before scaling, \overline{x}_{i} is the mean of intensities of feature i across all samples and {\sqrt{s_i}} is the square root of the standard deviation of intensities of feature i across all samples. In other words, it subtracts the mean intensity of a feature across samples from the intensities of that feature in each sample and divides by the square root of the standard deviation of that feature. For more information, see the reference section.

Usage

scale_pareto(data)

Arguments

data	A tidy tibble created by read_featuretable.

Value

A tibble with autoscaled intensities.

References

• R. A. Van Den Berg, H. C. Hoefsloot, J. A. Westerhuis, A. K. Smilde, M. J. Van Der Werf, BMC Genomics 2006, 7, 142, DOI 10.1186/1471-2164-7-142.

Examples

toy_metaboscape %>%
  scale_pareto()

metamorphr documentation built on June 10, 2026, 5:07 p.m.