Impute missing values in a SummarizedExperiment object

This function imputes missing values in a SummarizedExperiment object, using the specified imputation method.

Usage

rna.impute(
  se,
  fun = c("zero", "bpca", "knn", "QRILC", "MLE", "MinDet", "MinProb", "man", "min",
    "zero", "mixed", "nbavg", "SampMin"),
  ...
)

Arguments

se

A SummarizedExperiment object.

fun

A character vector specifying the imputation method. Options include "zero", "bpca", "knn", "QRILC", "MLE", "MinDet", "MinProb", "man", "min", "zero", "mixed", "nbavg", and "SampMin".

...

Additional arguments passed to the imputation method.

Value

A SummarizedExperiment object with missing values imputed.

Details

"SampMin" replaces missing values with the minimum value found in each sample. For information about the remaining imputation methods, see help("imputeMethods", "MsCoreUtils")