Man pages for JosieLHayes/adductomicsR
Processing of adductomic mass spectral datasets
| adductQuant | Adduct quantification for adductomicsR |
| adductQuantif-class | AdductQuantif class The AdductQuantif class contains a peak... |
| adductSpec-class | AdductSpec class |
| adductSpecGen | Constructor of AdductSpec object deconvolute spectra MS2 and... |
| digestMod | modified 'Digest' function (from OrgMassSpecR package) |
| dotProdMatrix | dot product matrix calculation |
| dotProdSpectra | dot product calculation |
| dynamicNoiseFilter | Dynamic Noise filtration |
| filterAdductTable | filter samples with low QC and features with large missing... |
| findPeaks | identify peaks |
| generateTargTable | Make a target table for adductomicsR quantificaton using... |
| IsotopicDistributionMod | modified function from package OrgMassSpecR |
| loessWrapperMod | wrapper script for loess modeling |
| ms2Group | group MS/MS precursor masses |
| nAdjPeaks | remove lower intensity adjacent peaks |
| outputPeakTable | output peak table from AdductQuantif object |
| peakIdQuant_newMethod | Adduct Peak quant |
| peakIntegrate | integrate a peak from a peak table with peak start and peak... |
| peakListId | peak list Identification |
| peakRangeSum | raw eic signal intensity and mass summation and spike... |
| probPeaks | potentially problematic peak identification |
| retentionCorr | loess-based retention time deviation correction |
| rtDevModelling | MS/MS spectrum grouping and retention time deviation... |
| rtDevModelSave | extract and save retention time deviation models from... |
| signalGrouping | Signal grouping |
| specSimPepId | spectral similarity based adducted peptide identification for... |
| spectraCreate | Deconvolute both MS2 and MS1 levels scans adductomics |
| truePeakTrough | true peak and trough detection |
