pointsAdducts: Overlay adduct parental and adduct masses on plot of msimat...

In kbseah/mass2adduct: Mass Spectrometry Imaging Molecular Adduct Finder

Description

On a mass spectrum plot (from an msimat object), plot points representing either parental or adduct masses as an overlay. By default only those flagged as having statistically significant spatial correlation will be plotted. The massdiff object should have been processed with adductMatch and corrPairsMSI to annotate with adduct matches and correlation test results.

Usage

pointsAdducts(d, diff, which = c("adduct", "parent"), invert = FALSE,
  signif = TRUE, pch = 20, cex = 0.5, col = "red", ...)

Arguments

d	msimat; Object of class msimat created by function msimat
diff	data.frame; Mass difference correlation table produced by function corrPairsMSI
which	string; Either plot "parent" or "adduct" peaks as overlay
invert	logical; Overlay the points which are NOT adducts
signif	logical; Only plot points which have statistically significant correlation
pch	Plot character to use, passed to points
cex	Character expansion parameter, passed to points
col	Color for overlay points, passed to points
...	Other parameters to pass to points

See Also

corrPairsMSI calculate correlations for mass pairs

massdiff tabulate all possible mass pairs

kbseah/mass2adduct documentation built on June 9, 2021, 9:20 p.m.