Plot intragroup pooled median absolute deviation (PMAD) of the normalized data

Plot intragroup pooled median absolute deviation (PMAD) of the normalized data

Usage

plot_intragroup_PMAD(se, ain = NULL, condition = NULL, diff = FALSE)

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.

condition

column name of condition (if NULL, condition saved in SummarizedExperiment will be taken)

diff

Boolean indicating whether to visualize the reduction of intragroup variation (PMAD) compared to "log" (TRUE) or a normal boxplot of intragroup variation (PMAD) for each normalization method (FALSE).

Value

ggplot object (boxplot)

Examples

data(tuberculosis_TMT_se)
plot_intragroup_PMAD(tuberculosis_TMT_se, ain = NULL,
                            condition = NULL, diff = FALSE)
#> All assays of the SummarizedExperiment will be used.
#> Condition of SummarizedExperiment used!