setup_analysis: Setup a tidy table compatible with a 'AnalysisConfiguration'

In wolski/prolfqua: Proteomics Label Free Quantification

Setup a tidy table compatible with a AnalysisConfiguration

Description

Extracts columns relevant for a configuration from a data frame and create new columns e.g. sampleName column etc.

Usage

setup_analysis(data, configuration, cc = TRUE, from_factors = FALSE)

Arguments

data	data.frame
cc	complete cases default TRUE
config	AnlalysisConfiguration

See Also

Other configuration: AnalysisConfiguration, AnalysisParameters, AnalysisTableAnnotation, INTERNAL_FUNCTIONS_BY_FAMILY, R6_extract_values(), complete_cases(), concrete_AnalysisConfiguration, make_interaction_column(), make_reduced_hierarchy_config(), sample_subset(), separate_factors(), separate_hierarchy(), spread_response_by_IsotopeLabel(), table_factors()

Examples

skylineconfig <- create_config_Skyline(isotopeLabel = "Isotope.Label.Type",
 ident_qValue = "Detection.Q.Value")
skylineconfig$table$factors[["Time"]] = "Sampling.Time.Point"
sample_analysis <- setup_analysis(prolfqua_data('data_skylinePRMSample_A')$data, skylineconfig)

wolski/prolfqua documentation built on May 12, 2024, 10:16 p.m.