Plot the densities of the normalized data

Usage

plot_densities(se, ain = NULL, color_by = NULL, facet_norm = TRUE, ncol = 3)

Arguments

se: SummarizedExperiment containing all necessary information of the proteomics data set
ain: Vector of strings which assay should be used as input (default NULL). If NULL then all normalization of the se object are plotted next to each other.
color_by: String specifying the column to color the samples (If NULL, the condition column of the SummarizedExperiment object is used. If "No", no color bar added.)
facet_norm: Boolean specifying whether to facet by normalization methods (default TRUE). If FALSE, list of plots of the different normalized data is returned.
ncol: Number of columns in plot (for faceting)

Value

if facet_norm = TRUE, ggplot object, else list of ggplot objects

Examples

data(tuberculosis_TMT_se)
plot_densities(tuberculosis_TMT_se, ain = NULL, color_by = NULL,
                          facet_norm = TRUE, ncol = 3)
#> All assays of the SummarizedExperiment will be used.
#> Condition of SummarizedExperiment used!

plot_densities(tuberculosis_TMT_se, ain = c("log2", "IRS_on_RobNorm"),
                          color_by = "Label",
              facet_norm = FALSE)
#> $log2

#> 
#> $IRS_on_RobNorm

#>