Plot a heatmap of the sample intensities with optional column annotations for a selection of normalization methods

Usage

plot_heatmap(
  se,
  ain = NULL,
  color_by = c("Group", "Pool"),
  label_by = NULL,
  only_refs = 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.
color_by: Vector of strings specifying the columns to color the samples (If NULL, the condition column of the SummarizedExperiment object is used. If "No", no color bars added.)
label_by: String specifying the column in the metadata used to label the samples for the UpSet plot
only_refs: Logical, if TRUE, only reference samples (ComRef) are included in the plot

Value

list of ggplot objects

Examples

data(tuberculosis_TMT_se)
plot_heatmap(tuberculosis_TMT_se, ain = c("log2"), color_by = NULL,
             label_by = NULL, only_refs = FALSE)
#> Condition of SummarizedExperiment used!
#> Label of SummarizedExperiment used!
#> $log2

#>