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Impute Missing Values with a Constant

impute.Rd

Replaces all missing values (NA and NaN) in the numeric columns of the data with a single, user-specified constant.

Usage

impute(object, value)

# S4 method for class 'SummarizedExperiment,numeric'
impute(object, value)

Arguments

object

A SummarizedExperiment object containing data with missing values.

value

The numeric constant to use for replacing NA and NaN values.

Value

A SummarizedExperiment object with missing values imputed.

Examples

# Create a sample data frame with metadata and a missing numeric value
raw_data <- data.frame(
  Protein.ID = c("P02768", "P01023", "P60709"),
  Gene.Name = c("ALB", "A2M", "ACTB"),
  Sample_A = c(1.2e6, 2.3e6, NA),
  Sample_B = c(1.4e6, 2.6e6, 4.8e6)
)

# Create a SummarizedExperiment object
se <- create_se(raw_data)
#> `intensity_cols` not provided. Detecting numeric columns as intensity data.
#> Warning: `sample_metadata` not provided. Generating a basic version from column names.

# Impute the NA with 0
imputed_obj <- impute(se, value = 0)

# View the imputed assay data
print(assay(imputed_obj))
#> Error in assay(imputed_obj): could not find function "assay"