hidden_aliases {Spectra} | R Documentation |
For S4 methods that require a documentation entry but only clutter the index.
addProcessing(object, ...) backendInitialize(object, ...) backendMerge(object, ...) ## S4 method for signature 'numeric' bin( x, y, size = 1, breaks = seq(floor(min(y)), ceiling(max(y)), by = size), FUN = max ) containsMz(object, ...) containsNeutralLoss(object, ...) dropNaSpectraVariables(object, ...) export(object, ...) filterMzRange(object, ...) filterMzValues(object, ...) isReadOnly(object, ...) peaksData(object, ...) peaksData(object) <- value pickPeaks(object, ...) replaceIntensitiesBelow(object, threshold = min, ...) reset(object, ...) selectSpectraVariables(object, ...) setBackend(object, backend, ...) spectrapply(object, ...) ## S4 method for signature 'MsBackendDataFrame' show(object) ## S4 method for signature 'MsBackendDataFrame' backendMerge(object, ...) ## S4 method for signature 'MsBackendDataFrame' acquisitionNum(object) ## S4 method for signature 'MsBackendDataFrame' peaksData(object) ## S4 method for signature 'MsBackendDataFrame' centroided(object) ## S4 replacement method for signature 'MsBackendDataFrame' centroided(object) <- value ## S4 method for signature 'MsBackendDataFrame' collisionEnergy(object) ## S4 replacement method for signature 'MsBackendDataFrame' collisionEnergy(object) <- value ## S4 method for signature 'MsBackendDataFrame' dataOrigin(object) ## S4 replacement method for signature 'MsBackendDataFrame' dataOrigin(object) <- value ## S4 method for signature 'MsBackendDataFrame' dataStorage(object) ## S4 replacement method for signature 'MsBackendDataFrame' dataStorage(object) <- value ## S4 method for signature 'MsBackendDataFrame' intensity(object) ## S4 replacement method for signature 'MsBackendDataFrame' intensity(object) <- value ## S4 method for signature 'MsBackendDataFrame' ionCount(object) ## S4 method for signature 'MsBackendDataFrame' isCentroided(object, ...) ## S4 method for signature 'MsBackendDataFrame' isEmpty(x) ## S4 method for signature 'MsBackendDataFrame' isolationWindowLowerMz(object) ## S4 replacement method for signature 'MsBackendDataFrame' isolationWindowLowerMz(object) <- value ## S4 method for signature 'MsBackendDataFrame' isolationWindowTargetMz(object) ## S4 replacement method for signature 'MsBackendDataFrame' isolationWindowTargetMz(object) <- value ## S4 method for signature 'MsBackendDataFrame' isolationWindowUpperMz(object) ## S4 replacement method for signature 'MsBackendDataFrame' isolationWindowUpperMz(object) <- value ## S4 method for signature 'MsBackendDataFrame' length(x) ## S4 method for signature 'MsBackendDataFrame' lengths(x, use.names = FALSE) ## S4 method for signature 'MsBackendDataFrame' msLevel(object, ...) ## S4 method for signature 'MsBackendDataFrame' mz(object) ## S4 replacement method for signature 'MsBackendDataFrame' mz(object) <- value ## S4 method for signature 'MsBackendDataFrame' polarity(object) ## S4 replacement method for signature 'MsBackendDataFrame' polarity(object) <- value ## S4 method for signature 'MsBackendDataFrame' precScanNum(object) ## S4 method for signature 'MsBackendDataFrame' precursorCharge(object) ## S4 method for signature 'MsBackendDataFrame' precursorIntensity(object) ## S4 method for signature 'MsBackendDataFrame' precursorMz(object) ## S4 replacement method for signature 'MsBackendDataFrame' peaksData(object) <- value ## S4 method for signature 'MsBackendDataFrame' rtime(object) ## S4 replacement method for signature 'MsBackendDataFrame' rtime(object) <- value ## S4 method for signature 'MsBackendDataFrame' scanIndex(object) ## S4 method for signature 'MsBackendDataFrame' selectSpectraVariables(object, spectraVariables = spectraVariables(object)) ## S4 method for signature 'MsBackendDataFrame' smoothed(object) ## S4 replacement method for signature 'MsBackendDataFrame' smoothed(object) <- value ## S4 method for signature 'MsBackendDataFrame' spectraData(object, columns = spectraVariables(object)) ## S4 replacement method for signature 'MsBackendDataFrame' spectraData(object) <- value ## S4 method for signature 'MsBackendDataFrame' spectraNames(object) ## S4 replacement method for signature 'MsBackendDataFrame' spectraNames(object) <- value ## S4 method for signature 'MsBackendDataFrame' spectraVariables(object) ## S4 method for signature 'MsBackendDataFrame' tic(object, initial = TRUE) ## S4 method for signature 'MsBackendDataFrame' x$name ## S4 replacement method for signature 'MsBackendDataFrame' x$name <- value ## S4 method for signature 'MsBackendDataFrame' x[i, j, ..., drop = FALSE] ## S4 method for signature 'MsBackendDataFrame,ANY' split(x, f, drop = FALSE, ...) ## S4 method for signature 'MsBackendDataFrame' filterAcquisitionNum( object, n = integer(), dataStorage = character(), dataOrigin = character() ) ## S4 method for signature 'MsBackendHdf5Peaks' backendInitialize( object, files = character(), data = DataFrame(), hdf5path = character(), ..., BPPARAM = bpparam() ) ## S4 method for signature 'MsBackendHdf5Peaks' show(object) ## S4 method for signature 'MsBackendHdf5Peaks' peaksData(object) ## S4 method for signature 'MsBackendHdf5Peaks' intensity(object) ## S4 replacement method for signature 'MsBackendHdf5Peaks' intensity(object) <- value ## S4 method for signature 'MsBackendHdf5Peaks' ionCount(object) ## S4 method for signature 'MsBackendHdf5Peaks' isCentroided(object, ...) ## S4 method for signature 'MsBackendHdf5Peaks' isEmpty(x) ## S4 method for signature 'MsBackendHdf5Peaks' lengths(x, use.names = FALSE) ## S4 method for signature 'MsBackendHdf5Peaks' mz(object) ## S4 replacement method for signature 'MsBackendHdf5Peaks' mz(object) <- value ## S4 replacement method for signature 'MsBackendHdf5Peaks' peaksData(object) <- value ## S4 method for signature 'MsBackendHdf5Peaks' spectraData(object, columns = spectraVariables(object)) ## S4 replacement method for signature 'MsBackendHdf5Peaks' spectraData(object) <- value ## S4 replacement method for signature 'MsBackendHdf5Peaks' x$name <- value ## S4 method for signature 'MsBackendHdf5Peaks' x[i, j, ..., drop = FALSE] ## S4 method for signature 'MsBackendHdf5Peaks' backendMerge(object, ...) ## S4 method for signature 'MsBackendMzR' backendInitialize(object, files, ..., BPPARAM = bpparam()) ## S4 method for signature 'MsBackendMzR' show(object) ## S4 method for signature 'MsBackendMzR' peaksData(object) ## S4 method for signature 'MsBackendMzR' intensity(object) ## S4 replacement method for signature 'MsBackendMzR' intensity(object) <- value ## S4 method for signature 'MsBackendMzR' ionCount(object) ## S4 method for signature 'MsBackendMzR' isCentroided(object, ...) ## S4 method for signature 'MsBackendMzR' isEmpty(x) ## S4 method for signature 'MsBackendMzR' lengths(x, use.names = FALSE) ## S4 method for signature 'MsBackendMzR' mz(object) ## S4 replacement method for signature 'MsBackendMzR' mz(object) <- value ## S4 method for signature 'MsBackendMzR' spectraData(object, columns = spectraVariables(object)) ## S4 replacement method for signature 'MsBackendMzR' spectraData(object) <- value ## S4 method for signature 'MsBackendMzR' spectraNames(object) ## S4 replacement method for signature 'MsBackendMzR' spectraNames(object) <- value ## S4 method for signature 'MsBackendMzR' spectraVariables(object) ## S4 replacement method for signature 'MsBackendMzR' x$name <- value ## S4 method for signature 'MsBackendMzR' export( object, x, file = tempfile(), format = c("mzML", "mzXML"), copy = FALSE, BPPARAM = bpparam() ) ## S4 method for signature 'Spectra' show(object)
Not applicable