xcmsViewer/NAMESPACE at main · nava20ir/xcmsViewer · GitHub

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# Generated by roxygen2: do not edit by hand

export(.mirrorPlot)
export(annotateMetabolite)
export(asIntensityTable)
export(asMetaTable)
export(chromPeaksPostFilter)
export(cosnorm)
export(cospec)
export(defineFeatures)
export(dumpPrunedXcmsSet)
export(exportTables)
export(featurePostfilter)
export(filterSpectrum)
export(getAbundance)
export(getAnnot)
export(getEIC2)
export(getEICFromFeatureID)
export(getFeatureExprs)
export(getFeatureMeta)
export(getIonMode)
export(getMassTol)
export(getMasterPeak)
export(getPeak)
export(getPheno)
export(getScan2)
export(getScanIDFromFeatureID)
export(getScanMeta)
export(getScanUniqueID)
export(massQuery)
export(mirrorPlot)
export(peakPicking)
export(prepViewerData)
export(prepareAllMGFs)
export(runPrunedXcmsSet)
export(xcmsViewer)
exportClasses(prunedXcmsSet)
exportClasses(xcmsFeatureSet)
exportClasses(xcmsPeak)
exportClasses(xcmsScan)
exportMethods(getAbundance)
exportMethods(getAnnot)
exportMethods(getEIC2)
exportMethods(getEICFromFeatureID)
exportMethods(getFeatureExprs)
exportMethods(getFeatureMeta)
exportMethods(getIonMode)
exportMethods(getMassTol)
exportMethods(getMasterPeak)
exportMethods(getPeak)
exportMethods(getPheno)
exportMethods(getScan2)
exportMethods(getScanMeta)
exportMethods(getScanUniqueID)
import(Biobase)
import(BiocParallel)
import(DBI)
import(RSQLite)
import(fastmatch)
import(graphics, except = layout)
import(methods)
import(omicsViewer)
import(openxlsx)
import(parallel)
import(plotly, except = groups)
import(shiny, except = span)
import(xcms)
importClassesFrom(xcms,CentWaveParam)
importClassesFrom(xcms,CentWavePredIsoParam)
importClassesFrom(xcms,MSWParam)
importClassesFrom(xcms,MassifquantParam)
importClassesFrom(xcms,MatchedFilterParam)
importClassesFrom(xcms,MzClustParam)
importClassesFrom(xcms,NearestPeaksParam)
importClassesFrom(xcms,ObiwarpParam)
importClassesFrom(xcms,PeakDensityParam)
importClassesFrom(xcms,PeakGroupsParam)
importFrom(Biobase,exprs)
importFrom(Biobase,fData)
importFrom(Biobase,pData)
importFrom(BiocParallel,bplapply)
importFrom(MAIT,Biotransformations)
importFrom(MSnbase,spectrapply)
importFrom(S4Vectors,DataFrame)
importFrom(beeswarm,beeswarm)
importFrom(grDevices,rgb)
importFrom(matrixStats,colMedians)
importFrom(matrixStats,rowVars)
importFrom(omicsViewer,fillNA)
importFrom(randomcoloR,distinctColorPalette)
importFrom(reshape2,acast)
importFrom(shinythemes,shinytheme)
importFrom(stats,cutree)
importFrom(stats,dist)
importFrom(stats,hclust)
importFrom(stats,mad)
importFrom(stats,median)
importFrom(stats,na.omit)
importFrom(stats,p.adjust)
importFrom(stats,pnorm)
importFrom(stats,prcomp)
importFrom(stats,quantile)
importFrom(stats,t.test)
importFrom(stringr,str_split_fixed)
importFrom(utils,data)
importFrom(utils,packageVersion)