osd (version 0.1)

plotOSDres: Plotting OSD objects

Description

Plots the results determined by osd function. Profile or spectra resolution can be selected for visualization.

Usage

plotOSDres(OSDobj, type = c("eic", "tic", "s"), ncomp = vector(), comp.spectra = vector(), mztxt.top = 5)

Arguments

OSDobj

the osd selected for plotting

type

the type of resolution to be plotted. Concentration resolution can be shown by its extracted ion chromatogram (EIC) "eic" or by its ion total chromatogram "tic". Also, the spectra for each compound in the model can be shown by "s".

ncomp

vector; the compounds to be plotted. If spectra is selected for visualization, please select only one compound to plot.

comp.spectra

a vector to compare a resolved spectra with.

mztxt.top

integer; the number of the m/z values ordered by intensity to visualize on the spectra plot

See Also

osd

Examples

#load GC-MS sample data, containing three different metabolites 
#appearing in co-elution.
data(gcms1)

#resolve the situation using ICA-OSD algorithm
resolution <- osd(D=gcms1, k=3, res.method="ica.osd")

#plot the resolution, the extracted ion chromatogram (m/z) are plotted 
# in grey whereas the profile matrix appear in color.
plotOSDres(resolution, type="eic")
plotOSDres(resolution, type="tic")

#plot each resolved spectra for compound 1 to 3.
plotOSDres(resolution, type="s",1)
plotOSDres(resolution, type="s",2)
plotOSDres(resolution, type="s",3)