plotlySpectraMirror: Interactive visualisation of a mirror plot

In rformassspectrometry/SpectraVis: Visualising and Exploring Spectra Data

Interactive visualisation of a mirror plot

Description

The plotlySpectraMirror function creates an interactive mirror plot comparing two spectra x and y with each other. Peaks with matching m/z values (considering ppm and tolerance) are indicated with a point which size can be specified with parameter matchSize.

See also plotSpectraMirror() for a non-interactive version of this plot.

Usage

plotlySpectraMirror(
  x,
  y,
  xLabel = "",
  xColor = "#737373",
  yLabel = "",
  yColor = "#737373",
  matchSize = 5,
  ppm = 20,
  tolerance = 0
)

Arguments

x	A Spectra() object of length 1.
y	A Spectra() object of length 1.
xLabel	Optional character(1) with the label (name) of x.
xColor	Color for peaks of spectrum x.
yLabel	Optional character(1) with the label (name) of y.
yColor	Color for peaks of spectrum y.
matchSize	numeric(1) defining the size of the point that will be used to indicate peaks in x and y with matching m/z.
ppm	numeric(1) with the m/z relative acceptable difference (in ppm) for peaks to be considered matching (see common() for more details).
tolerance	numeric(1) with the absolute acceptable difference of m/z values for peaks to be considered matching (see common() for more details).

Value

A plotly object

Author(s)

Johannes Rainer

Examples

## Load example data.
library(msdata)
fl <- system.file("TripleTOF-SWATH", "PestMix1_DDA.mzML", package = "msdata")
pest_ms2 <- filterMsLevel(Spectra(fl), 2L)

plotlySpectraMirror(pest_ms2[948], pest_ms2[950])

plotlySpectraMirror(pest_ms2[948], pest_ms2[959], xLabel = "query",
    yLabel = "target", xColor = "red", yColor = "blue")

rformassspectrometry/SpectraVis documentation built on April 4, 2022, 8:32 p.m.