Convert mass_dataset to SummarizedExperiment Object — convert_mass_dataset2summarizedexperiment • massdataset

This function converts a mass_dataset object to a SummarizedExperiment object. It extracts the sample_info, variable_info, and expression_data from the mass_dataset object and constructs a new SummarizedExperiment object.

Usage

convert_mass_dataset2summarizedexperiment(object)

Arguments

object: A mass_dataset object containing sample_info, variable_info, and expression_data.

Value

A SummarizedExperiment object containing the same data as the input mass_dataset object.

Details

The function checks if the input object is of class mass_dataset. If it is, it extracts the sample_info, variable_info, and expression_data and uses these to create a new SummarizedExperiment object.

Author

Xiaotao Shen xiaotao.shen@outlook.com

Examples

data("expression_data")
data("sample_info")
data("variable_info")
object <- create_mass_dataset(
  expression_data = expression_data,
  sample_info = sample_info,
  variable_info = variable_info
)

se <- convert_mass_dataset2summarizedexperiment(object)
se
#> class: SummarizedExperiment 
#> dim: 1000 8 
#> metadata(0):
#> assays(1): counts
#> rownames(1000): M136T55_2_POS M79T35_POS ... M232T937_POS M301T277_POS
#> rowData names(3): variable_id mz rt
#> colnames(8): Blank_3 Blank_4 ... PS4P3 PS4P4
#> colData names(4): sample_id injection.order class group