API for PengyiYang/PhosR
A set of methods and tools for comprehensive analysis of phosphoproteomics data
| Global functions | |
|---|---|
| .getSignalomes | Source code |
| .kinaseNetwork | Source code |
| .phosRsignalome | Source code |
| .phosphositeClusters | Source code |
| KinaseFamily | Man page |
| Pathways.KEGG | Man page |
| Pathways.reactome | Man page |
| PhosphoSite.human | Man page |
| PhosphoSite.mouse | Man page |
| PhosphoSite.rat | Man page |
| RUV | Source code |
| RUVphospho | Man page Source code |
| RUVproteome | Man page Source code |
| SPSs | Man page |
| Signalomes | Man page Source code |
| abundPlot | Source code |
| annoKinaseSubstrateRelation | Source code |
| createFrequencyMat | Man page Source code |
| dendPlot | Source code |
| frequencyScoring | Man page Source code |
| generateSignalome | Source code |
| kinaseActivityHeatmap | Source code |
| kinaseSubstrateHeatmap | Man page Source code |
| kinaseSubstratePred | Man page Source code |
| kinaseSubstrateProfile | Man page Source code |
| kinaseSubstrateScore | Man page Source code |
| mIntersect | Man page Source code |
| mUnion | Man page Source code |
| matANOVA | Man page Source code |
| meanAbundance | Man page Source code |
| medianScale | Source code |
| medianScaling | Man page Source code |
| minmax | Man page Source code |
| motif.human.list | Man page |
| motif.mouse.list | Man page |
| motif.rat.list | Man page |
| multiAdaSampling | Source code |
| pathwayOverrepresent | Man page Source code |
| pathwayRankBasedEnrichment | Man page Source code |
| pcaPlot | Source code |
| phosCollapse | Man page Source code |
| phospho.L6.ratio | Man page |
| phospho.cells.Ins | Man page |
| phospho.liver.Ins.TC.ratio.RUV | Man page |
| plotQC | Man page Source code |
| ptImpute | Man page Source code |
| quantPlot | Source code |
| scImpute | Man page Source code |
| scorePhosphositeProfile | Source code |
| scorePhosphositesMotifs | Source code |
| selectGrps | Man page Source code |
| selectOverallPercent | Man page Source code |
| selectTimes | Man page Source code |
| siteAnnotate | Man page Source code |
| stImp | Source code |
| standardise | Man page Source code |
| substrateList | Source code |
| tImpute | Man page Source code |
