plot_hierarchies_line_df: Generates peptide level plots for all proteins

In wolski/prolfqua: Proteomics Label Free Quantification

Generates peptide level plots for all proteins

Description

Generates peptide level plots for all proteins

Usage

plot_hierarchies_line_df(pdata, config, show.legend = FALSE)

Arguments

pdata	data.frame
config	AnalysisConfiguration

See Also

plot_hierarchies_line

Other aggregation: INTERNAL_FUNCTIONS_BY_FAMILY, aggregate_intensity_topN(), estimate_intensity(), intensity_summary_by_hkeys(), medpolish_estimate(), medpolish_estimate_df(), medpolish_estimate_dfconfig(), medpolish_protein_estimates(), plot_estimate(), plot_hierarchies_add_quantline(), plot_hierarchies_line(), rlm_estimate(), rlm_estimate_dfconfig()

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_hierarchies_add_quantline(), plot_hierarchies_boxplot_df(), plot_hierarchies_line(), plot_intensity_distribution_violin(), plot_pca(), plot_raster(), plot_sample_correlation(), plot_screeplot()

Examples

istar <- sim_lfq_data_peptide_config()

istar$config$table$is_response_transformed <- FALSE
res <- plot_hierarchies_line_df(istar$data, istar$config)
res[[1]]
istar$config$table$is_response_transformed <- TRUE
res <- plot_hierarchies_line_df(istar$data, istar$config)
res[[2]]

#TODO make it work for other hiearachy levels.

wolski/prolfqua documentation built on Dec. 4, 2024, 11:18 p.m.