prot.impute: Impute missing values in a SummarizedExperiment object

In NicWir/VisomX: User-Friendly and Comprehensive Analysis and Visualization of Omics Data

Impute missing values in a SummarizedExperiment object

Description

Imputes missing values in a SummarizedExperiment object.

Usage

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

Arguments

se	A SummarizedExperiment object
fun	A character string specifying the imputation method to use. The available methods are "bpca", "knn", "QRILC", "MLE", "MinDet", "MinProb", "man", "min", "zero", "mixed", "nbavg", and "SampMin".
...	Additional arguments passed to the imputation function.

Details

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

Value

A SummarizedExperiment object with imputed values

See Also

prot.make_unique, prot.make_se

Examples

data(mset)
se <- make_se(mset)
se <- prot.impute(se, fun = "knn")

NicWir/VisomX documentation built on Dec. 8, 2024, 1:27 a.m.