Summarize missing in condtion as barplot
missingness_per_condition(
x,
config,
factors = config$table$factor_keys_depth()
)Other plotting:
ContrastsPlotter,
INTERNAL_FUNCTIONS_BY_FAMILY,
UpSet_interaction_missing_stats(),
UpSet_missing_stats(),
medpolish_estimate_df(),
missigness_histogram(),
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(),
UpSet_missing_stats(),
get_contrast(),
missigness_histogram(),
missingness_per_condition_cumsum()
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
res <- missingness_per_condition(analysis, config)
#> Warning: >>>> deprecated! <<<<
#>
#> use summarize_stats_factors instead.
#> completing cases
stopifnot("ggplot" %in% class(res$figure))
stopifnot(ncol(res$data) >= 5)