UpSetR plot from interaction_missing_stats

UpSetR plot from interaction_missing_stats

Usage

upset_interaction_missing_stats(lfqdata, tr = 2)

Arguments

lfqdata

LFQData object

tr

if less than tr observations in condition then missing

See also

Other plotting: ContrastsPlotter, INTERNAL_FUNCTIONS_BY_FAMILY, medpolish_estimate_df(), missigness_histogram(), missingness_per_condition(), missingness_per_condition_cumsum(), 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_na_heatmap(), plot_pca(), plot_raster(), plot_sample_correlation(), upset_missing_stats()

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

Examples

istar <- sim_lfq_data_peptide_config()
#> creating sampleName from file_name column
#> completing cases
#> completing cases done
#> setup done
lfq <- LFQData$new(istar$data, istar$config)
pups <- upset_interaction_missing_stats(lfq)
stopifnot(ncol(pups$data) == 5)
UpSetR::upset(pups$data, order.by = "freq", nsets = pups$nsets)