API for sneumann/xcms-presvnbridge
LC/MS and GC/MS Data Analysis

Global functions
AutoLockMass Man page
AutoLockMass,xcmsRaw-method Man page
AutoLockMass-methods Man page
KeggSearch Source code
MSW.cwt Source code
MSW.extendLength Source code
MSW.extendNBase Source code
MSW.getLocalMaximumCWT Source code
MSW.getRidge Source code
MSW.localMaximum Source code
SSgauss Man page
absent Man page
absent,xcmsSet-method Man page
c, c-methods Man page
c.xcmsSet Man page Source code
calibrate Man page
calibrate,xcmsSet-method Man page
cent Source code
colMax Man page Source code
collect Man page
collect,xcmsFragments-method Man page
collect,xcmsRaw-method Man page
collect-methods Man page
continuousPtsAboveThreshold Source code
continuousPtsAboveThresholdIdx Source code
deepCopy Man page
deepCopy,xcmsRaw-method Man page
descendMin Man page Source code
descendMinTol Source code
descendValue Man page Source code
descendZero Man page Source code
diffreport Man page
diffreport,xcmsSet-method Man page
doubleMatrix Man page Source code
estimate Source code
estimateChromNoise Source code
etg Man page Source code
fastMatch Source code
filepaths Man page
filepaths,xcmsSet-method Man page
filepaths<- Man page
filepaths<-,xcmsSet-method Man page
fillPeaks Man page
fillPeaks,xcmsSet-method Man page
fillPeaks-methods Man page
fillPeaks.MSW Man page
fillPeaks.MSW,xcmsSet-method Man page
fillPeaks.MSW-methods Man page
fillPeaks.chrom Man page
fillPeaks.chrom,xcmsSet-method Man page
fillPeaks.chrom-methods Man page
fillPeaksChromPar Source code
filtfft Man page Source code
findEqualGreater Man page Source code
findEqualGreaterM Man page Source code
findEqualGreaterUnsorted Source code
findEqualLess Man page Source code
findMZ Man page
findMZ,xcmsFragments-method Man page
findPeaks Man page
findPeaks,xcmsRaw-method Man page
findPeaks-methods Man page
findPeaks.MS1 Man page
findPeaks.MS1,xcmsRaw-method Man page
findPeaks.MSW Man page
findPeaks.MSW,xcmsRaw-method Man page
findPeaks.centWave Man page
findPeaks.centWave,xcmsRaw-method Man page
findPeaks.massifquant Man page
findPeaks.massifquant,xcmsRaw-method Man page
findPeaks.matchedFilter Man page
findPeaks.matchedFilter,xcmsRaw-method Man page
findPeaksPar Source code
findRange Man page Source code
findneutral Man page
findneutral,xcmsFragments-method Man page
fitGauss Source code
gauss Source code
gaussCoverage Source code
getEIC Man page
getEIC,xcmsRaw-method Man page
getEIC,xcmsSet-method Man page
getEIC-methods Man page
getLocalNoiseEstimate Source code
getMsnScan Man page
getMsnScan,xcmsRaw-method Man page
getPeaks Man page
getPeaks,xcmsRaw-method Man page
getPeaks-methods Man page
getScan Man page
getScan,xcmsRaw-method Man page
getSpec Man page
getSpec,xcmsRaw-method Man page
getSpec-methods Man page
getSpecWindow Source code
getXS Source code
group Man page
group,xcmsSet-method Man page
group-methods Man page
group.density Man page
group.density,xcmsSet-method Man page
group.mzClust Man page
group.mzClust,xcmsSet-method Man page
group.nearest Man page
group.nearest,xcmsSet-method Man page
groupidx Man page
groupidx,xcmsSet-method Man page
groupidx<- Man page
groupidx<-,xcmsSet-method Man page
groupnames Man page
groupnames,xcmsEIC-method Man page
groupnames,xcmsSet-method Man page
groupnames-methods Man page
groups Man page
groups,xcmsSet-method Man page
groups<- Man page
groups<-,xcmsSet-method Man page
groupval Man page
groupval,xcmsSet-method Man page
groupval-methods Man page
image,xcmsRaw-method Man page
initialize,netCdfSource-method Man page
initialize,rampSource-method Man page
integerMatrix Man page Source code
invalid Source code
joinOverlappingPeaks Source code
loadRaw Man page
loadRaw,netCdfSource-method Man page
loadRaw,rampSource-method Man page
loadRaw,xcmsSource-method Man page
loadRaw-methods Man page
logicalMatrix Man page Source code
makeacqNum Man page
makeacqNum, xcmsRaw-method Man page
match.profFun Source code
matchpeaks Source code
medianFilter Man page Source code
minifm Source code
msgfun.featureDetection Source code
msgfunGeneric Source code
msn2xcmsRaw Man page Source code
mzCenter.apex Source code
mzCenter.mean Source code
mzCenter.meanApex3 Source code
mzCenter.wMean Source code
mzCenter.wMeanApex3 Source code
mzClustGeneric Source code
mzClust_hclust Source code
mzRRawData Source code
mzRRawDataMSn Source code
mzrange Man page
mzrange,xcmsEIC-method Man page
na.flatfill Man page Source code
netCDFClose Man page Source code
netCDFIsFile Man page Source code
netCDFMSPoints Man page Source code
netCDFOpen Man page Source code
netCDFRawData Man page Source code
netCDFStrError Man page Source code
netCDFVarDouble Man page Source code
netCDFVarID Man page Source code
netCDFVarInt Man page Source code
netCDFVarLen Man page Source code
netCdfSource-class Man page
odd Source code
onLoad Source code Source code
onUnload Source code Source code
panel.cor Man page Source code
patternVsRowScore Source code
peakPlots,xcmsSet-method Man page
peakPlots-methods Man page
peakTable Man page
peakTable,xcmsSet-method Man page
peaks Man page
peaks,xcmsSet,missing-method Man page
peaks<- Man page
peaks<-,xcmsSet-method Man page
phenoData Man page
phenoData,xcmsSet-method Man page
phenoData<- Man page
phenoData<-,xcmsSet-method Man page
phenoDataFromPaths Source code
plot, plot-methods Man page
plot.xcmsEIC Man page Source code
plotChrom Man page
plotChrom,xcmsRaw-method Man page
plotChrom-methods Man page
plotEIC Man page
plotEIC,xcmsRaw-method Man page
plotPeaks Man page
plotPeaks,xcmsRaw-method Man page
plotPeaks-methods Man page
plotRaw Man page
plotRaw,xcmsRaw-method Man page
plotRaw-methods Man page
plotScan Man page
plotScan,xcmsRaw-method Man page
plotScan-methods Man page
plotSpec Man page
plotSpec,xcmsRaw-method Man page
plotSpec-methods Man page
plotSpecWindow Source code
plotSurf Man page
plotSurf,xcmsRaw-method Man page
plotSurf-methods Man page
plotTIC Man page
plotTIC,xcmsRaw-method Man page
plotTIC-methods Man page
plotTree Man page
plotTree,xcmsFragments-method Man page
plotrt Man page
plotrt,xcmsSet-method Man page
plotrt-methods Man page
ppm Source code
ppmDev Source code
present Man page
present,xcmsSet-method Man page
profBin Man page Source code
profBinLin Man page Source code
profBinLinBase Man page Source code
profBinLinBaseM Man page Source code
profBinLinM Man page Source code
profBinM Man page Source code
profIntLin Man page Source code
profIntLinM Man page Source code
profMaxIdx Man page Source code
profMaxIdxM Man page Source code
profMedFilt Man page
profMedFilt,xcmsRaw-method Man page
profMedFilt-methods Man page
profMethod Man page
profMethod,xcmsRaw-method Man page
profMethod-methods Man page
profMethod<- Man page
profMethod<-,xcmsRaw-method Man page
profMethod<--methods Man page
profMz Man page
profMz,xcmsRaw-method Man page
profRange Man page
profRange,xcmsRaw-method Man page
profRange-methods Man page
profStep Man page
profStep,xcmsRaw-method Man page
profStep-methods Man page
profStep<- Man page
profStep<-,xcmsRaw-method Man page
profStep<--methods Man page
profinfo Man page
profinfo,xcmsSet-method Man page
profinfo<- Man page
profinfo<-,xcmsSet-method Man page
progressCallback Man page
progressCallback,xcmsSet-method Man page
progressCallback<- Man page
progressCallback<-,xcmsSet-method Man page
pval Man page Source code
rampClose Man page Source code
rampCloseAll Man page Source code
rampInit Man page Source code
rampIsFile Man page Source code
rampNumScans Man page Source code
rampOpen Man page Source code
rampPrintFiles Man page Source code
rampRawData Man page Source code
rampRawDataMSn Man page Source code
rampSIPeaks Man page Source code
rampScanHeaders Man page Source code
rampSource-class Man page
rawEIC Man page
rawEIC,xcmsRaw-method Man page
rawMat Man page
rawMat,xcmsRaw-method Man page
rawMat-methods Man page
read.mascot Source code
rectUnique Man page Source code
remakeTIC Source code
retcor Man page
retcor,xcmsSet-method Man page
retcor-methods Man page
retcor.linear Man page
retcor.linear,xcmsSet-method Man page
retcor.loess Man page
retcor.loess,xcmsSet-method Man page
retcor.obiwarp Man page
retcor.obiwarp,xcmsSet-method Man page
retcor.peakgroups Man page
retcor.peakgroups,xcmsSet-method Man page
retexp Man page Source code
revMz Man page
revMz,xcmsRaw-method Man page
rowMax Man page Source code
rtrange Man page
rtrange,xcmsEIC-method Man page
running Source code
sampclass Man page
sampclass,xcmsSet-method Man page
sampclass<- Man page
sampclass<-,xcmsSet-method Man page
sampnames Man page
sampnames,xcmsEIC-method Man page
sampnames,xcmsSet-method Man page
sampnames-methods Man page
sampnames<- Man page
sampnames<-,xcmsSet-method Man page
sequences Source code
setXCMSOptions Source code
show,xcmsEIC-method Man page
show,xcmsFragments-method Man page
show,xcmsPeaks-method Man page
show,xcmsRaw-method Man page
show,xcmsSet-method Man page
sortMz Man page
sortMz,xcmsRaw-method Man page
specDist Man page
specDist,xcmsSet-method Man page
specDist-methods Man page
specDist.cosine Man page
specDist.cosine,matrix,matrix-method Man page
specDist.meanMZmatch Man page
specDist.meanMZmatch,matrix,matrix-method Man page
specDist.peakCount Man page
specDist.peakCount,matrix,matrix-method Man page
specDist.peakCount-methods Man page
specNoise Man page Source code
specPeaks Man page Source code
split, split-methods Man page
split.xcmsRaw Man page Source code
split.xcmsSet Man page Source code
stitch Man page
stitch,xcmsRaw-method Man page
stitch-methods Man page
stitch.netCDF Man page
stitch.xml Man page
trimm Source code
which.colMax Man page Source code
which.rowMax Man page Source code
write.cdf Man page
write.cdf,xcmsRaw-method Man page
write.mzdata Man page
write.mzdata,xcmsRaw-method Man page
xcmsBoxPlot Source code
xcmsClusterApply Source code
xcmsEIC-class Man page
xcmsFileSource-class Man page
xcmsFragments Man page Source code
xcmsFragments-class Man page
xcmsFragments.collect Source code
xcmsFragments.hasMSn Source code
xcmsFragments.makeXS Source code
xcmsFragments.plotTree Source code
xcmsFragments.show Source code
xcmsPapply Man page
xcmsParallelSetup Source code
xcmsPeaks-class Man page
xcmsRaw Man page Source code
xcmsRaw-class Man page
xcmsSet Man page Source code
xcmsSet-class Man page
xcmsSource Man page
xcmsSource,character-method Man page
xcmsSource,xcmsSource-method Man page
xcmsSource-class Man page
xcmsSource-methods Man page
sneumann/xcms-presvnbridge documentation built on May 26, 2017, 1:25 p.m.