plotFeatureGroups {xcms} | R Documentation

## Plot feature groups in the m/z-retention time space

### Description

`plotFeatureGroups` visualizes defined feature groups in the m/z by retention time space. Features are indicated by points with features from the same feature group being connected by a line. See `featureGroups()` for details on and options for feature grouping.

### Usage

    plotFeatureGroups(
      x,
      xlim = numeric(),
      ylim = numeric(),
      xlab = "retention time",
      ylab = "m/z",
      pch = 4,
      col = "#00000060",
      type = "o",
      main = "Feature groups",
      featureGroups = character()
    )

### Arguments

`x` | `XCMSnExp()` object with grouped features (i.e. after calling `groupFeatures()`.
`xlim` | `numeric(2)` with the lower and upper limit for the x-axis.
`ylim` | `numeric(2)` with the lower and upper limit for the y-axis.
`xlab` | `character(1)` with the label for the x-axis.
`ylab` | `character(1)` with the label for the y-axis.
`pch` | the plotting character. Defaults to `pch = 4` i.e. plotting features as crosses. See `par()` for more information.
`col` | color to be used to draw the features. At present only a single color is supported.
`type` | plotting type (see `par()`). Defaults to `type = "o"` which draws each feature as a point and connecting the features of the same feature group with a line.
`main` | `character(1)` with the title of the plot.
`featureGroups` | optional `character` of feature group IDs to draw only specified feature group(s). If not provided, all feature groups are drawn.

### Author(s)

Johannes Rainer

[Package xcms version 3.16.1 Index]