plot_samples {lipidr} | R Documentation |
lipidr
supports two types of plots for sample quality checking.
tic
plots a bar chart for total sample intensity.
boxplot
plots a boxplot chart to examine the distribution of values
per sample.
plot_samples(data, type = c("tic", "boxplot"), measure = "Area", log = TRUE, color = NULL)
data |
LipidomicsExperiment object. |
type |
plot type, either |
measure |
Which measure to use as intensity, usually Area,
Area Normalized or Height. Default is |
log |
Whether values should be log2 transformed. Default is |
color |
The column name of a sample annotation to be used as color |
A ggplot object.
data(data_normalized) plot_samples(data_normalized, type = "tic", "Area", log = TRUE) plot_samples(data_normalized, type = "tic", "Background", log = FALSE) plot_samples( data_normalized[, data_normalized$group == "QC"], type = "boxplot", measure = "Retention Time", log = FALSE )