plotIsoDiffReport | R Documentation |
Generates bar plots comparing isotopologue distributions in labeled samples of two different sample conditions. Use relative ion intensities to show distributions.
plotIsoDiffReport(isoDiffReport, xcmsSet, intChoice, sampleNames1, sampleNames2, labelReport1, labelReport2, classes1, classes2, labeledSamples, isotopeMassDifference, outputfile)
isoDiffReport |
Output of getIsoDiffReport(). |
xcmsSet |
xcmsSet object containing grouped and retention-time-aligned peaks (i.e. after calling group() and retcor() in XCMS) |
intChoice |
"intChoice" from getIsoLabelReport() |
sampleNames1 |
"sampleNames" from getIsoLabelReport() called for condition 1 |
sampleNames2 |
"sampleNames" from getIsoLabelReport() called for condition 2 |
labelReport1 |
output of getIsoLabelReport() for condition 1 |
labelReport2 |
output of getIsoLabelReport() for condition 2 |
classes1 |
character vector designating whether each sample in labelsReport1 is unlabeled or labeled |
classes2 |
character vector designating whether each sample in labelsReport2 is unlabeled or labeled |
labeledSamples |
character variable designating labeled samples (e.g. "C13") |
isotopeMassDifference |
mass difference between unlabeled and labeled atom, e.g. 1.00335 for C13 |
outputfile |
Name of pdf file to which plots are drawn. |
Pdf file containing 12 comparison plots per page.
Xiaojing Huang
## Not run:
## plotIsoDiffReport(isoDiffReport, "isoDiffPlots.pdf")
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