Package 'xcms' - Bioconductor
Package 'xcms' - Bioconductor
Package 'xcms' - Bioconductor
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40 plotChrom-methods<br />
Value<br />
A xcmsSet object.<br />
Methods<br />
x = "xcmsEIC"<br />
plot.xcmsEIC(x, y, groupidx = groupnames(x), sampleidx = sampnames(x), rtrange = x@rtran<br />
Author(s)<br />
Colin A. Smith, <br />
See Also<br />
xcmsEIC-class, png, pdf, postscript,<br />
plotChrom-methods<br />
Plot extracted ion chromatograms from the profile matrix<br />
Description<br />
Uses the pre-generated profile mode matrix to plot averaged or base peak extracted ion chromatograms<br />
over a specified mass range.<br />
Arguments<br />
Value<br />
object<br />
base<br />
ident<br />
fitgauss<br />
vline<br />
the xcmsRaw object<br />
logical, plot a base-peak chromatogram<br />
logical, use mouse to identify and label peaks<br />
logical, fit a gaussian to the largest peak<br />
numeric vector with locations of vertical lines<br />
... arguments passed to profRange<br />
If ident == TRUE, an integer vector with the indecies of the points that were identified. If<br />
fitgauss == TRUE, a nls model with the fitted gaussian. Otherwise a two-column matrix with the<br />
plotted points.<br />
Methods<br />
See Also<br />
object = "xcmsRaw" plotChrom(object, base = FALSE, ident = FALSE, fitgauss = FALSE, vline =<br />
xcmsRaw-class
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