Description Usage Arguments Value
Note that multiple scans with the same precursor m/z values are averaged (after peak integration).
1 2 3 4 5 |
xraw |
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mz |
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ppm |
Numeric (default 10 ppm). Integration range. If |
slicemode |
Character (default "FRAG").Select one from "FRAG" or "NL", to plot precursor ion spectrum with fragment or neutral loss intensity respectively. |
scanType |
Character (default "profile"). Either "profile" or "centroid". |
plotSpec |
Logical (default TRUE). Whether plot pseudo-precursor ion spectrum. If set to FALSE, only returns pseudo precursor ion spectrum as a matrix. |
type |
A character vector containing |
col |
Colors used to plot multiple spectra. A character vector (default |
pch |
Same as |
cex |
Same as |
labelPeaks |
Logical (default TRUE), that determines whether to plot peak labels. |
top |
The number of peak labels (default 5). By default, top 5 peaks in each spectrum will be labelled. |
SNR |
S/N ratio for peak picking (default 5). |
halfWindowSize |
A parameter for peak picking (default NULL). By default, automatically determined based on data. Larger value prevents peak labeling of nearer peaks. |
digits |
Digits of peak label (default 4). |
Plot spectrrum. Plus, if assigned to a variable, returns a data.frame with precursor m/z, and intensities (AUC for profile, sum for cetroid).
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