API for rformassspectrometry/PSM
Handling and Managing Peptide Spectrum Matches
| Global functions | |
|---|---|
| .calculateFragments | Source code |
| .describePeptides | Source code |
| .describeProteins | Source code |
| .makeSparseAdjacencyMatrixFromChar | Source code |
| .makeSparseAdjacencyMatrixFromPSM | Source code |
| .neutralLoss | Source code |
| .terminalModifications | Source code |
| ConnectedComponents | Man page Source code |
| ConnectedComponents-class | Man page |
| PSM | Man page Source code |
| PSM,PSM | Man page |
| PSM,character | Man page |
| PSM,data.frame | Man page |
| PSM-class | Man page |
| PSMatch | Man page |
| PSMatch-package | Man page |
| [,ConnectedComponents,integer,ANY,ANY | Man page |
| [,ConnectedComponents,integer,ANY,ANY-method | Man page |
| [,ConnectedComponents,logical,ANY,ANY | Man page |
| [,ConnectedComponents,logical,ANY,ANY-method | Man page |
| [,ConnectedComponents,numeric,ANY,ANY | Man page |
| [,ConnectedComponents,numeric,ANY,ANY-method | Man page |
| addFragments | Man page Source code |
| adjacencyMatrix | Man page |
| adjacencyMatrix,ConnectedComponents | Man page |
| adjacencyMatrix,ConnectedComponents-method | Man page |
| adjacencyMatrix,PSM-method | Man page |
| as_data_frame | Source code |
| calculateFragments | Man page |
| calculateFragments,character,missing-method | Man page |
| ccMatrix | Man page Source code |
| connectedComponents | Man page Source code |
| defaultNeutralLoss | Man page Source code |
| describePeptides | Man page Source code |
| describeProteins | Man page Source code |
| dims,ConnectedComponents | Man page |
| dims,ConnectedComponents-method | Man page |
| factorsAsStrings | Source code |
| filterPSMs | Man page Source code |
| filterPsmDecoy | Man page Source code |
| filterPsmFdr | Man page Source code |
| filterPsmRank | Man page Source code |
| filterPsmShared | Man page Source code |
| getAminoAcids | Man page Source code |
| getAtomicMass | Man page Source code |
| length,ConnectedComponents | Man page |
| length,ConnectedComponents-method | Man page |
| makeAdjacencyMatrix | Man page Source code |
| makeCamelCase | Source code |
| makePeptideProteinVector | Man page Source code |
| ncols,ConnectedComponents | Man page |
| ncols,ConnectedComponents-method | Man page |
| nrows,ConnectedComponents | Man page |
| nrows,ConnectedComponents-method | Man page |
| plotAdjacencyMatrix | Man page Source code |
| prioritiseConnectedComponents | Man page Source code |
| prioritizeConnectedComponents | Man page |
| psmVariables | Man page Source code |
| readPSMs | Man page |
| readPSMsMzID | Source code |
| readPSMsMzR | Source code |
| reducePSMs | Man page Source code |
| reduced | Man page Source code |
| reduced<- | Man page |
| show,ConnectedComponents | Man page |
| showDetails | Source code |
| subsetConnectedComponents | Source code |
