plot PCA

plot PCA

plot_pca(data, config, PC = c(1, 2), add_txt = FALSE, plotly = FALSE)

Other plotting: ContrastsPlotter, INTERNAL_FUNCTIONS_BY_FAMILY, UpSet_interaction_missing_stats(), UpSet_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_heatmap_cor_iheatmap(), plot_hierarchies_add_quantline(), plot_hierarchies_boxplot_df(), plot_hierarchies_line(), plot_hierarchies_line_df(), plot_intensity_distribution_violin(), plot_raster(), plot_sample_correlation(), plot_screeplot()

Examples





istar <- sim_lfq_data_protein_config(with_missing = FALSE)
#> creating sampleName from fileName column
#> completing cases
#> completing cases done
#> setup done
config <- istar$config
analysis <- istar$data
tmp <- plot_pca(analysis, config, add_txt= TRUE)
#> Joining with `by = join_by(sampleName)`
stopifnot("ggplot" %in% class(tmp) )
tmp <- plot_pca(analysis, config, add_txt= FALSE)
#> Joining with `by = join_by(sampleName)`
stopifnot("ggplot" %in% class(tmp) )
tmp

tmp <- plot_pca(analysis, config, PC = c(1,2))
#> Joining with `by = join_by(sampleName)`
stopifnot("ggplot" %in% class(tmp) )
tmp <- plot_pca(analysis, config, PC = c(2,40))
#> Warning: nr of PCs: 11
stopifnot(is.null(tmp))

See also

Examples