Man pages for Viant-Metabolomics/msPurity
Automated Evaluation of Precursor Ion Purity for Mass Spectrometry Based Fragmentation in Metabolomics

assessPuritySingleAssess the purity of a single LC-MS/MS or DI-MS/MS file
averageAllFragSpectra-purityA-methodUsing a purityA object, average and filter MS/MS spectra for...
averageInterFragSpectra-purityA-methodUsing a purityA object, average and filter fragmentation...
averageIntraFragSpectra-purityA-methodUsing a purityA object, average and filter fragmentation...
averageSpectra-purityD-methodUsing purityD object, calculates to average mz, intensity and...
averageSpectraSingleCalculates to average mz, intensity and signal-to-noise of...
combineAnnotationsCombine Annotations
create_databaseCreate database deprecated
createDatabaseCreate database
createMSP-purityA-methodUsing a purityA object, create an MSP file of fragmentation...
dimsPredictPurity-purityD-methodUsing purityD object, assess anticipated purity from a DI-MS...
dimsPredictPuritySinglePredict the precursor purity from a DI-MS dataset
filterFragSpectra-purityA-methodFilter fragmentation spectra associated with an XCMS feature
filterp-purityD-methodFilter out peaks based on intensity and RSD criteria
flag_removeFlag and remove unwanted peaks
frag4feature-purityA-methodUsing a purityA object, link MS/MS data to XCMS features
get_additional_mzml_metaGet additional mzML meta
GetfilesGet files for DI-MS processing
getP-purityD-methodGet peaklist for a purityD object
groupPeaksExGroup peaklists from a list of dataframes
groupPeaks-purityD-methodUsing purityD object, group multiple peaklists by similar mz...
initialize-purityD-methodConstructor for S4 class to represent a DI-MS purityD
iwNormGaussGaussian normalisation for isolation window efficiency
iwNormQE.5Q-Exactive +/- 0.5 range, normalisation for isolation window...
iwNormRcosineRaised cosine normalisation for isolation window efficiency
msPurity'msPurity' package
pcalcPerform purity calculation on a peak matrix
purityAAssess the acquired precursor ion purity of MS/MS spectra...
purityD-classAn S4 class to represent a DI-MS purityD
purityXAssessing anticipated purity of XCMS features from an LC-MS...
show-purityA-methodShow method for purityA class
show-purityD-methodShow method for purityD
show-purityX-methodShow method for purityX
spectral_matchingSpectral matching deprecated
spectralMatchingSpectral matching for LC-MS/MS datasets
subtractMZSubtract MZ values based on ppm tolerance and noise ratio
subtract-purityD-methodUsing Subtract MZ values based on ppm tolerance and noise...
validate-purityA-methodValidate precursor purity predictions using LC-MS and...
writeOut-purityD-methodUsing purityD object, save peaks as text files
Viant-Metabolomics/msPurity documentation built on April 17, 2022, 4:25 a.m.