plot_samples {lipidr} | R Documentation

## Informative plots to investigate samples

### Description

`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.

### Usage

    plot_samples(
      data,
      type = c("tic", "boxplot"),
      measure = "Area",
      log = TRUE,
      color = NULL
    )

### Arguments

`data` | LipidomicsExperiment object.
`type` | plot type, either `tic` or `boxplot`. Default is `tic`.
`measure` | Which measure to use as intensity, usually Area, Area Normalized or Height. Default is `Area`
`log` | Whether values should be log2 transformed. Default is `TRUE`
`color` | The column name of a sample annotation to be used as color

### Value

A ggplot object.

### Examples

    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
    )

[Package lipidr version 2.8.1 Index]