annotate	annotate-methods
annotate,xcmsSet-method	annotate-methods
annotateDiffreport	annotateDiffreport
annotateDiffreport,xsAnnotate-methods	annotateDiffreport
calcCaS	calcCaS-methods
calcCaS,xsAnnotate-method	calcCaS-methods
calcCiS	calcCiS-methods
calcCiS,xsAnnotate-method	calcCiS-methods
calcIsotopes	calcIsotopes-methods
calcIsotopes,xsAnnotate-method	calcIsotopes-methods
calcPC	calcPC-methods
calcPC,calcPC-method	calcPC-methods
calcPC,xsAnnotate-method	calcPC-methods
calcPC.hcs	calcPC.hcs-methods
calcPC.hcs,xsAnnotate-method	calcPC.hcs-methods
calcPC.lpc	calcPC.lpc-methods
calcPC.lpc,xsAnnotate-method	calcPC.lpc-methods
class:ruleSet	ruleSet-class
cleanParallel	cleanParallel
combinexsAnnos	combinexsAnnos
compoundLibraries	compoundLibraries
compoundQuantiles	compoundQuantiles
compoundQuantiles-class	compoundQuantiles-class
findAdducts	findAdducts-methods
findAdducts,xsAnnotate-method	findAdducts-methods
findIsotopes	findIsotopes-methods
findIsotopes,xsAnnotate-method	findIsotopes-methods
findIsotopesWithValidation	findIsotopesWithValidation-methods
findIsotopesWithValidation,xsAnnotate-method	findIsotopesWithValidation-methods
findKendrickMasses	findKendrickMasses
findNeutralLoss	findNeutralLoss
findNeutralLossSpecs	findNeutralLossSpecs
generateRules	ruleSet-class
generateRules,ruleSet-method	ruleSet-class
getAllPeakEICs	getAllPeakEICs-methods
getAllPeakEICs,xsAnnotate-method	getAllPeakEICs-methods
getAtomCount	getAtomCount-compoundQuantiles-method
getAtomCount,compoundQuantiles-method	getAtomCount-compoundQuantiles-method
getIsotopeCluster	getIsotopeCluster
getIsotopeProportion	getIsotopeProportion-compoundQuantiles-method
getIsotopeProportion,compoundQuantiles-method	getIsotopeProportion-compoundQuantiles-method
getPeaklist	getPeaklist-methods
getPeaklist,xsAnnotate-method	getPeaklist-methods
getpspectra	getpspectra
groupCorr	groupCorr-methods
groupCorr,xsAnnotate-method	groupCorr-methods
groupDen	groupDen-methods
groupDen,xsAnnotate-method	groupDen-methods
groupFWHM	groupFWHM-methods
groupFWHM,xsAnnotate-method	groupFWHM-methods
massWindowSizes	massWindowSizes
mm14	mm14
plotEICs	plotEIC.xsAnnotate
plotEICs,xsAnnotate-method	plotEIC.xsAnnotate
plotEICs.xsAnnotate	plotEIC.xsAnnotate
plotPsSpectrum	plotPsSpectrum.xsAnnotate
plotPsSpectrum,xsAnnotate-method	plotPsSpectrum.xsAnnotate
plotPsSpectrum.xsAnnotate	plotPsSpectrum.xsAnnotate
psDist	psDist-methods
psDist,CAMERA-method	psDist-methods
psDist-methods	psDist-methods
pspec2metfrag	pspec2metfrag
pspec2metfusion	pspec2metfrag
readLists	ruleSet-class
readLists,ruleSet-method	ruleSet-class
ruleSet-class	ruleSet-class
setDefaultLists	ruleSet-class
setDefaultLists,ruleSet-method	ruleSet-class
setDefaultParams	ruleSet-class
setDefaultParams,ruleSet-method	ruleSet-class
setParams	ruleSet-class
setParams,ruleSet,numeric,numeric,numeric,numeric,numeric,numeric,character,character-method	ruleSet-class
show,ruleSet-method	ruleSet-class
show,xsAnnotate-method	xsAnnotate-class
xsAnnotate	xsAnnotate
xsAnnotate-class	xsAnnotate-class
