Files in sneumann/xcms-presvnbridge

LC/MS and GC/MS Data Analysis

.gitignore

DESCRIPTION

LICENSE

NAMESPACE

R/00xcmsEIC-class.R R/00xcmsFragments-class.R R/00xcmsSet-class.R R/00xcmsSource-class.R R/01xcmsFileSource-class.R R/01xcmsRaw-class.R R/02netCdfSource-class.R R/02rampSource-class.R R/CleanData.R R/MPI.R R/c.R R/cwTools.R R/databases.R R/fastMatch.R R/init.R R/matchpeaks.R R/models.R R/msn2xcmsRaw.R R/mzClust.R R/netCDF.R R/present.R R/ramp.R R/specDist.R R/unix/zzz.R R/windows/zzz.R R/writemzdata.R R/xcmsEIC.R R/xcmsFragments.R R/xcmsRaw.R R/xcmsSet.R R/xcmsSource.R

inst/CHANGELOG

inst/CITATION

inst/NEWS

inst/doc/FlowChart.graffle

inst/doc/FlowChart.pdf

inst/doc/xcms.bib

inst/doc/xcmsDirect.Rnw

inst/doc/xcmsInstall.Rnw

inst/doc/xcmsMSn.Rnw

inst/doc/xcmsPreprocess.Rnw

inst/unitTests/Makefile

inst/unitTests/runit.absentPresent.R inst/unitTests/runit.diffreport.R inst/unitTests/runit.fillPeaks.R inst/unitTests/runit.findPeaksCentWave.fitGauss.plot.R inst/unitTests/runit.findPeaksMassIfQuant.R inst/unitTests/runit.getEIC.R inst/unitTests/runit.group.R inst/unitTests/runit.msms.R inst/unitTests/runit.obiwarp.R inst/unitTests/runit.phenoData.R inst/unitTests/runit.ramp.R inst/unitTests/runit.rawMat.R inst/unitTests/runit.scanrage.R inst/unitTests/runit.snames.R inst/unitTests/runit.specDist.R inst/unitTests/runit.splitCombine.R inst/unitTests/runit.splitRaw.R inst/unitTests/runit.unusedGroups.R inst/unitTests/runit.writemzdata.R inst/unitTests/runit.xcmsRawCopy.R inst/unitTests/runit.xcmsSet.R man/AutoLockMass-methods.Rd man/SSgauss.Rd man/absent-methods.Rd man/c.xcmsSet.Rd man/calibrate.Rd man/colMax.Rd man/collect-methods.Rd man/descendZero.Rd man/diffreport-methods.Rd man/doubleMatrix.Rd man/etg.Rd man/fillPeaks-methods.Rd man/fillPeaks.MSW-methods.Rd man/fillPeaks.chrom-methods.Rd man/filtfft.Rd man/findEqualGreater.Rd man/findMZ.Rd man/findPeaks-methods.Rd man/findPeaks.MS1-methods.Rd man/findPeaks.MSW-methods.Rd man/findPeaks.centWave-methods.Rd man/findPeaks.massifquant-methods.Rd man/findPeaks.matchedFilter-methods.Rd man/findneutral.Rd man/getEIC-methods.Rd man/getPeaks-methods.Rd man/getScan-methods.Rd man/getSpec-methods.Rd man/group-methods.Rd man/group.density.Rd man/group.mzClust.Rd man/group.nearest.Rd man/groupnames-methods.Rd man/groupval-methods.Rd man/image.xcmsRaw.Rd man/loadRaw-methods.Rd man/medianFilter.Rd man/msn2xcmsRaw.Rd man/na.flatfill.Rd man/netCDF.Rd man/netCdfSource-class.Rd man/panel.cor.Rd man/peakPlots-methods.Rd man/peakTable-methods.Rd man/plot.xcmsEIC.Rd man/plotChrom-methods.Rd man/plotEIC-methods.Rd man/plotPeaks-methods.Rd man/plotRaw-methods.Rd man/plotScan-methods.Rd man/plotSpec-methods.Rd man/plotSurf-methods.Rd man/plotTIC-methods.Rd man/plotrt-methods.Rd man/profGenerate.Rd man/profMedFilt-methods.Rd man/profMethod-methods.Rd man/profRange-methods.Rd man/profStep-methods.Rd man/pval.Rd man/ramp.Rd man/rampSource-class.Rd man/rawEIC-methods.Rd man/rawMat-methods.Rd man/rectUnique.Rd man/retcor-methods.Rd man/retcor.obiwarp-methods.Rd man/retcor.peakgroups-methods.Rd man/retexp.Rd man/sampnames-methods.Rd man/specDist-methods.Rd man/specDist.cosine-methods.Rd man/specDist.meanMZmatch-methods.Rd man/specDist.peakCount-methods.Rd man/specNoise.Rd man/specPeaks.Rd man/split.xcmsRaw.Rd man/split.xcmsSet.Rd man/stitch-methods.Rd man/write.cdf-methods.Rd man/write.mzdata-methods.Rd man/xcmsEIC-class.Rd man/xcmsFileSource-class.Rd man/xcmsFragments-class.Rd man/xcmsFragments.Rd man/xcmsPapply.Rd man/xcmsPeaks-class.Rd man/xcmsRaw-class.Rd man/xcmsRaw.Rd man/xcmsSet-class.Rd man/xcmsSet.Rd man/xcmsSource-class.Rd man/xcmsSource-methods.Rd

src/Makevars

src/Makevars.win

src/binarySearch.h

src/fastMatch.c

src/massifquant/DataKeeper.cpp

src/massifquant/DataKeeper.h

src/massifquant/OpOverload.cpp

src/massifquant/OpOverload.h

src/massifquant/SegProc.cpp

src/massifquant/SegProc.h

src/massifquant/TrMgr.cpp

src/massifquant/TrMgr.h

src/massifquant/Tracker.cpp

src/massifquant/Tracker.h

src/massifquant/dpq.h

src/massifquant/nmath.h

src/massifquant/xcms_massifquant.cpp

src/mzClust_hclust.c

src/mzROI.c

src/obiwarp/lmat.h

src/obiwarp/mat.cpp

src/obiwarp/mat.h

src/obiwarp/vec.cpp

src/obiwarp/vec.h

src/obiwarp/xcms_dynprog.cpp

src/obiwarp/xcms_dynprog.h

src/obiwarp/xcms_lmat.cpp

src/util.c

src/util.h

src/xcms.c

src/xcms.h

src/xcms_obiwarp.cpp

tests/doRUnit.R

sneumann/xcms-presvnbridge documentation built on May 30, 2019, 6:02 a.m.