Package index • Chromatograms

All functions

coreChromVariables() corePeaksVariables() `$`(<ChromBackend>) `$<-`(<ChromBackend>) backendMerge(<ChromBackend>) chromData(<ChromBackend>) `chromData<-`(<ChromBackend>) chromExtract(<ChromBackend>) factorize(<ChromBackend>) peaksData(<ChromBackend>) `peaksData<-`(<ChromBackend>) `[`(<ChromBackend>) `[[`(<ChromBackend>) `[[<-`(<ChromBackend>) backendBpparam(<ChromBackend>) backendInitialize(<ChromBackend>) backendParallelFactor(<ChromBackend>) backendMerge(<list>) chromIndex(<ChromBackend>) `chromIndex<-`(<ChromBackend>) chromVariables(<ChromBackend>) collisionEnergy(<ChromBackend>) `collisionEnergy<-`(<ChromBackend>) dataOrigin(<ChromBackend>) `dataOrigin<-`(<ChromBackend>) extractByIndex(<ChromBackend>,<ANY>) extractByIndex(<ChromBackend>,<missing>) intensity(<ChromBackend>) `intensity<-`(<ChromBackend>) isEmpty(<ChromBackend>) isReadOnly(<ChromBackend>) length(<ChromBackend>) lengths(<ChromBackend>) msLevel(<ChromBackend>) `msLevel<-`(<ChromBackend>) mz(<ChromBackend>) `mz<-`(<ChromBackend>) mzMax(<ChromBackend>) `mzMax<-`(<ChromBackend>) mzMin(<ChromBackend>) `mzMin<-`(<ChromBackend>) peaksVariables(<ChromBackend>) precursorMz(<ChromBackend>) `precursorMz<-`(<ChromBackend>) precursorMzMax(<ChromBackend>) `precursorMzMax<-`(<ChromBackend>) precursorMzMin(<ChromBackend>) `precursorMzMin<-`(<ChromBackend>) productMz(<ChromBackend>) `productMz<-`(<ChromBackend>) productMzMax(<ChromBackend>) `productMzMax<-`(<ChromBackend>) productMzMin(<ChromBackend>) `productMzMin<-`(<ChromBackend>) reset(<ChromBackend>) rtime(<ChromBackend>) `rtime<-`(<ChromBackend>) split(<ChromBackend>,<ANY>) filterChromData(<ChromBackend>) filterEmptyChromatograms(<ChromBackend>) filterPeaksData(<ChromBackend>) supportsSetBackend(<ChromBackend>) imputePeaksData(<ChromBackend>): Chromatographic MS Data Backends
ChromBackendMemory() backendInitialize(<ChromBackendMemory>): Improved in-memory Chromatographic data backend
ChromBackendMzR() backendInitialize(<ChromBackendMzR>): Chromatographic Data Backend for Reading mzML Files
ChromBackendSpectra() backendInitialize(<ChromBackendSpectra>) chromSpectraIndex(): Chromatographic Data Backend for Spectra Objects
Chromatograms(<ChromBackendOrMissing>) Chromatograms(<Spectra>) setBackend(<Chromatograms>,<ChromBackend>) `$`(<Chromatograms>) `$<-`(<Chromatograms>) `[`(<Chromatograms>) `[[`(<Chromatograms>) `[[<-`(<Chromatograms>) factorize(<Chromatograms>) chromExtract(<Chromatograms>) filterEmptyChromatograms(<Chromatograms>): The Chromatograms class to manage and access chromatographic data
chromData(<Chromatograms>) `chromData<-`(<Chromatograms>) chromVariables(<Chromatograms>) chromIndex(<Chromatograms>) `chromIndex<-`(<Chromatograms>) collisionEnergy(<Chromatograms>) `collisionEnergy<-`(<Chromatograms>) dataOrigin(<Chromatograms>) `dataOrigin<-`(<Chromatograms>) msLevel(<Chromatograms>) `msLevel<-`(<Chromatograms>) mz(<Chromatograms>) `mz<-`(<Chromatograms>) mzMax(<Chromatograms>) `mzMax<-`(<Chromatograms>) mzMin(<Chromatograms>) `mzMin<-`(<Chromatograms>) length(<Chromatograms>) precursorMz(<Chromatograms>) `precursorMz<-`(<Chromatograms>) precursorMzMin(<Chromatograms>) `precursorMzMin<-`(<Chromatograms>) precursorMzMax(<Chromatograms>) `precursorMzMax<-`(<Chromatograms>) productMz(<Chromatograms>) `productMz<-`(<Chromatograms>) productMzMin(<Chromatograms>) `productMzMin<-`(<Chromatograms>) productMzMax(<Chromatograms>) `productMzMax<-`(<Chromatograms>) filterChromData(<Chromatograms>): Chromatographic Peaks Metadata.
concatenateChromatograms() c(<Chromatograms>) split(<Chromatograms>,<ANY>): Merging, combining and splitting Chromatograms
imputePeaksData(<Chromatograms>) filterPeaksData(<Chromatograms>) intensity(<Chromatograms>) `intensity<-`(<Chromatograms>) peaksData(<Chromatograms>) `peaksData<-`(<Chromatograms>) peaksVariables(<Chromatograms>) rtime(<Chromatograms>) `rtime<-`(<Chromatograms>) lengths(<Chromatograms>) matchRtime() compareChromatograms(<Chromatograms>,<Chromatograms>) compareChromatograms(<Chromatograms>,<missing>) peakBoundary(<Chromatograms>): Chromatographic peaks data
plotChromatograms(<Chromatograms>) plotChromatogramsOverlay(<Chromatograms>): Plot chromatograms
applyProcessing(<Chromatograms>) addProcessing(<Chromatograms>) processingChunkSize(<Chromatograms>) `processingChunkSize<-`(<Chromatograms>) processingChunkFactor(<Chromatograms>): Efficiently processing Chromatograms objects.