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Histogram summarizing missigness

Source: R/tidyMS_missingness_summary.R
missigness_histogram.Rd

Histogram summarizing missigness

Usage

missigness_histogram(
  lfqdata,
  showempty = FALSE,
  factors = lfqdata$relevant_factor_keys(),
  alpha = 0.1
)

Arguments

lfqdata

LFQData object

showempty

show empty values

factors

factor columns to use

alpha

transparency

See also

Other plotting: ContrastsPlotter, INTERNAL_FUNCTIONS_BY_FAMILY, medpolish_estimate_df(), 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_interaction_missing_stats(), upset_missing_stats()

Other imputation: get_contrast(), missingness_per_condition(), missingness_per_condition_cumsum(), upset_interaction_missing_stats(), 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)
pl <- missigness_histogram(lfq, showempty = FALSE)
#> isotopeLabel ~ group_
stopifnot("ggplot" %in% class(pl))
pl <- missigness_histogram(lfq, showempty = TRUE)
#> isotopeLabel ~ group_
stopifnot("ggplot" %in% class(pl))