API for tofsims
Import, process and analysis of Time-of-Flight Secondary Ion Mass Spectrometry (ToF-SIMS) imaging data

Global functions
EigenDecompose Man page Source code
LapackGenEigen Man page Source code
MAF Man page Source code
MCR Man page
MCR-class Man page
MNF Man page Source code
MassImage Man page Source code
MassSpectra Man page Source code
PCA Man page
PCA-class Man page
PCAnalysis Man page Source code
PeakList Man page Source code
PrComp Man page
PrComp-class Man page
PrinComp Man page
PrinComp-class Man page
RSS Man page
RSS,MCR-method Man page
SNR Man page Source code
addFixedWidth Man page
addFixedWidth,PeakList,numeric,numeric-method Man page
addPeaks Man page
addPeaks,PeakList,missing,numeric-method Man page
addPeaks,PeakList,numeric,numeric-method Man page
analysis Man page
analysis,MassSpectra,missing-method Man page
analysis,MassSpectra,numeric-method Man page
analysis<- Man page
analysis<-,MassSpectra-method Man page
analysisName Man page
analysisName,MassSpectra-method Man page
analysisName<- Man page
analysisName<-,MassSpectra-method Man page
baseObject Man page
baseObject,PrComp-method Man page
baseObject,PrinComp-method Man page
binning Man page
binning,MassImage-method Man page
bwApply Man page
bwApply,MassSpectra,matrix-method Man page
cParIndicesSearch Source code
cReadRawPhi Man page Source code
cTable Man page Source code
calibPointNew Man page
calibPointNew,MassSpectra,numeric-method Man page
calibPoints Man page
calibPoints,MassSpectra-method Man page
calibPoints<- Man page
calibPoints<-,MassSpectra-method Man page
calibrate_ITZIP Source code
calibration Man page
calibration,MassSpectra-method Man page
calibration<- Man page
calibration<-,MassSpectra-method Man page
changePeakWidth Man page
changePeakWidth,PeakList,missing,missing,missing-method Man page
changePeakWidth,PeakList,numeric,numeric,numeric-method Man page
check.extension Man page Source code
computeMNF Man page Source code
computeNoise Man page Source code
coordToPixel Man page
coordToPixel,MassImage,numeric-method Man page
covDiffCalc Man page Source code
ctable Man page
dim,MassImage-method Man page
dim,MassSpectra-method Man page
extract.header.data Man page Source code
findClosestMatch Man page Source code
findPeakWidth Man page
findPeakWidth,PeakList-method Man page
getTOFs Man page
getTOFs,MassSpectra-method Man page
image Man page
image,MassImage-method Man page
image,PCA-method Man page
imageMatrix Man page
imageMatrix,MassImage-method Man page
imageMatrix,PCA-method Man page
import Man page Source code
import.raw Man page Source code
instrument Man page
instrument,MassSpectra-method Man page
instrument<- Man page
instrument<-,MassSpectra-method Man page
iters Man page
iters,MCR-method Man page
itzipName Man page
itzipName<- Man page
legend.col Man page Source code
look.for.itzip.property Man page Source code
makeTIC Man page
makeTIC,MassSpectra-method Man page
manualSelectPeaks Man page Source code
mz,MassSpectra-method Man page
mz<-,MassSpectra-method Man page
nComp Man page
nComp,PCA-method Man page
nPeaks Man page
nPeaks,PeakList-method Man page
ndim Man page
ndim,MassSpectra-method Man page
nearestNeighbourMean Man page Source code
nnMNF Man page Source code
nnMean Man page Source code
noPlottingData Man page
noPlottingData,PCA-method Man page
nz Man page
nz,MassSpectra,missing-method Man page
nz,MassSpectra,numeric-method Man page
nz<- Man page
nz<-,MassSpectra-method Man page
opaMCR Man page Source code
overlayPlot Man page
overlayPlot,list-method Man page
parIndicesSearch Man page Source code
pcaLoadings Man page
pcaLoadings,PCA,missing-method Man page
pcaLoadings,PCA,numeric-method Man page
pcaMAF Man page Source code
pcaScores Man page
pcaScores,PCA,ANY-method Man page
pcaScores,PCA,numeric-method Man page
peakIDs Man page
peakIDs,PeakList-method Man page
peakIDs<- Man page
peakIDs<-,PeakList-method Man page
peakMzs Man page
peakMzs,PeakList-method Man page
peakMzs<- Man page
peakMzs<-,PeakList-method Man page
peakPick Man page
peakPick,MassSpectra-method Man page
peakWidths Man page
peakWidths,PeakList-method Man page
peaks2Spectra Man page
peaks2Spectra,PeakList,MassSpectra-method Man page
plot Man page
plot,MassImage,missing-method Man page
plot,MassSpectra,missing-method Man page
plot,PCA,ANY-method Man page
plot,PeakList,missing-method Man page
points Man page
points,MassSpectra-method Man page
poissonScaling Man page
poissonScaling,MassSpectra-method Man page
prComp Man page Source code
prinComp Man page Source code
readBIF Man page Source code
readRawPhiC Source code
read_BIF Source code
recalibrate Man page
recalibrate,MassSpectra-method Man page
reduceSpectrumResolution Man page
reduceSpectrumResolution,MassSpectra-method Man page
removePeaks Man page
removePeaks,PeakList,missing,character,numeric,missing-method Man page
removePeaks,PeakList,missing,missing,missing,numeric-method Man page
removePeaks,PeakList,missing,missing,numeric,missing-method Man page
removePeaks,PeakList,numeric,missing,missing,missing-method Man page
resids Man page
resids,MCR-method Man page
scale Man page
scale,MassSpectra-method Man page
show,MassImage-method Man page
show,MassSpectra-method Man page
show,PeakList-method Man page
smoothScatter Man page
smoothScatter,PCA-method Man page
smootherGolay Man page
smootherGolay,MassSpectra-method Man page
smootherSpline Man page
smootherSpline,MassSpectra-method Man page
subset Man page
subset,MassImage-method Man page
tofsims-package Man page
unitMassPeaks Man page
unitMassPeaks,MassSpectra,numeric,numeric-method Man page
validMassImageObject Man page Source code
validMassSpectraObject Man page Source code
validPCAObject Man page Source code
validPeakListObject Man page Source code
xdim Man page
xdim,MassImage-method Man page
xdim,PCA-method Man page
xdim<- Man page
xy Man page
xy,MassImage-method Man page
xy<- Man page
xy<-,MassImage-method Man page
xySpec Man page
xySpec,MassImage-method Man page
ydim Man page
ydim,MassImage-method Man page
ydim,PCA-method Man page
ydim<- Man page
zdim Man page
zdim,MassSpectra-method Man page
tofsims documentation built on Nov. 1, 2018, 3:42 a.m.