prepare dataframe for UpSetR plot for all samples — UpSet_missing_stats • prolfqua

prepare dataframe for UpSetR plot for all samples

UpSet_missing_stats(data, config)

See also

Other plotting: ContrastsPlotter, INTERNAL_FUNCTIONS_BY_FAMILY, UpSet_interaction_missing_stats(), medpolish_estimate_df(), missigness_histogram(), missingness_per_condition(), missingness_per_condition_cumsum(), plot_NA_heatmap(), plot_estimate(), plot_heatmap(), plot_heatmap_cor(), plot_hierarchies_add_quantline(), plot_hierarchies_boxplot_df(), plot_hierarchies_line(), plot_hierarchies_line_df(), plot_intensity_distribution_violin(), plot_pca(), plot_raster(), plot_sample_correlation(), plot_screeplot()

Other imputation: UpSet_interaction_missing_stats(), get_contrast(), missigness_histogram(), missingness_per_condition(), missingness_per_condition_cumsum()

Examples

istar <- sim_lfq_data_peptide_config()
#> creating sampleName from fileName column
#> Warning: no nr_children column specified in the data, adding column nr_children and setting to 1.
#> completing cases
config <- istar$config
analysis <- istar$data
pups <- UpSet_missing_stats(analysis, config)
#> completing cases
if (FALSE) {
UpSetR::upset(pups$data , order.by = "freq", nsets = pups$nsets)
}