plotBPC: Plot base peak chromatograms for multiple high resolution...

In HiResTEC: Non-Targeted Fluxomics on High-Resolution Mass-Spectrometry Data

Plot base peak chromatograms for multiple high resolution masses in multiple samples.

Description

plotBPC will plot for each item of a list of result-objects from getMultipleBPC the BPC traces and the spectrum at the scan where the summed intensity of all ions is max.

Usage

plotBPC(
  bpc = NULL,
  mfrow = NULL,
  skip_plots = NULL,
  ylim = NULL,
  col = NULL,
  ids = NULL,
  type = "both",
  ann = c("mdev", "mz", "none")
)

Arguments

bpc	A bpc object (list of intensity matrices, rt x mz, including several attributes as attached by getMultipleBPC).
mfrow	Specify mfrow explicitly (is optimized internally if NULL to cover n=length(bpc)).
skip_plots	Allows to block certain subplots in the mfrow matrix to better align replicates.
ylim	Can be specified specifically, will be adjusted to overall min/max otherwise.
col	Specific color vector for masses may be provided.
ids	Specific plot ids may be explicitly provided.
type	Switch between co-plot of BPC and Spectrum ("both") or BPC alone ("bpc").
ann	Select value to annotate peaks in spectrum. Usually the mass deviation from the expected value in mDa.

Details

plotBPC allows to get a quick overview of similar information from all samples of an experimental set. As it uses 'mfrow' to arrange samples its output can not be used as subplot in other figures.

Value

A plot to the graphics device and NULL as invisible.

Examples

# load example raw data
bpc <- HiResTEC::res_list[[1]][["bpc"]][c(1:2, 13:14)]
plotBPC(bpc = bpc)
plotBPC(bpc = bpc, ann="mz", ids=LETTERS[1:4], mfrow=c(3,2), skip_plots=c(2,3))

HiResTEC documentation built on April 3, 2025, 9:35 p.m.