Skip to contents

Plot quality metrics

Source: R/qc_visualizations.R
plot_quality.Rd

Plots distribution of each quality metric, and a distribution of the flags.

Usage

plot_quality(
  object,
  all_features = FALSE,
  plot_flags = TRUE,
  assay.type = NULL
)

Arguments

object

a SummarizedExperiment or MetaboSet object

all_features

logical, should all features be used? If FALSE (the default), flagged features are removed before visualization.

plot_flags

logical, should the distribution of flags be added as a barplot?

assay.type

character, assay to be used in case of multiple assays and no quality metrics are present in feature data

Value

A ggplot object.

Examples

data(example_set)
plot_quality(example_set)
#> 
#> Quality metrics not found, computing them now