get_robscales: compute median and standard deviation for each sample

In wolski/prolfqua: Proteomics Label Free Quantification

compute median and standard deviation for each sample

Description

compute median and standard deviation for each sample

Usage

get_robscales(data, config)

See Also

Other preprocessing: INTERNAL_FUNCTIONS_BY_FAMILY, apply_to_response_matrix(), filter_proteins_by_peptide_count(), normalize_log2_robscale(), robust_scale(), scale_with_subset(), scale_with_subset_by_factors()

Examples

bb <- prolfqua::sim_lfq_data_peptide_config()
conf <- bb$config
sample_analysis <- bb$data
pepIntensityNormalized <- transform_work_intensity(sample_analysis, conf, log2)
s1 <- get_robscales(pepIntensityNormalized, conf)

res <- scale_with_subset(pepIntensityNormalized, pepIntensityNormalized, conf)
s2 <- get_robscales(res$data, conf)
abs(mean(s1$mads) - mean(s2$mads)) < 0.1

wolski/prolfqua documentation built on Dec. 4, 2024, 11:18 p.m.