PlotPTMAcrossSamples {MQmetrics} | R Documentation

## Plot PTM across samples

### Description

Plot PTM across samples

### Usage

    PlotPTMAcrossSamples(
      MQCombined,
      PTM_of_interest = "Oxidation (M)",
      log_base = 2,
      long_names = FALSE,
      sep_names = NULL
    )

### Arguments

`MQCombined` | Object list containing all the files from the MaxQuant output. It is the result from using `make_MQCombined`.
`PTM_of_interest` | Post-Translation Modification of interest. It is important they are defined exactly as MaxQuant does: Examples: 'Oxidation (M)', 'Acetyl (Protein N-term)', 'Unmodified', etc.
`log_base` | The logarithmic scale for the intensity. Default is 2.
`long_names` | If TRUE, samples having long names will be considered, and the name will be split by sep_names. By default = FALSE.
`sep_names` | If long_names is TRUE, sep_names has to be selected. Samples names will be split. By default is NULL.

### Value

A plot showing the PTM of interest.

### Examples

    MQPathCombined <- system.file("extdata/combined/", package = "MQmetrics")
    MQCombined <- make_MQCombined(MQPathCombined)
    PlotPTMAcrossSamples(MQCombined, PTM_of_interest = 'Oxidation (M)')

[Package MQmetrics version 1.2.0 Index]