median_impute: median impute missing data

In MRCIEU/metaboprep: Metabolomics data preparation and processing pipeline

median impute missing data

Description

This function imputes features (columns) of a metabolome matrix to median estimates. Useful for PCA.

Usage

median_impute(wdata)

Arguments

wdata

the metabolite data matrix. samples in row, metabolites in columns

Value

the matrix passed to the function but with NA's imputed to each columns median value.

Examples

ex_data = sapply(1:100, function(x){ rnorm(250, 40, 5) })
## define the data set
rownames(ex_data) = paste0("ind", 1:nrow(ex_data))
colnames(ex_data) = paste0("var", 1:ncol(ex_data))
## add in some missingness
ex_data[sample(1:length(ex_data), 500)] = NA
## Estimate missingness and generate plots
imp_data = median_impute(ex_data)

MRCIEU/metaboprep documentation built on Jan. 28, 2023, 7:29 p.m.