API for DAPAR
Tools for the Differential Analysis of Proteins Abundance with R
| Global functions | |
|---|---|
| BuildAdjacencyMatrix | Man page Source code |
| BuildColumnToProteinDataset | Man page Source code |
| BuildColumnToProteinDataset_par | Man page Source code |
| BuildPalette | Man page Source code |
| CVDistD | Man page Source code |
| CVDistD_HC | Man page Source code |
| CountPep | Man page |
| GOAnalysisSave | Man page |
| GetDetailedNbPeptides | Man page Source code |
| GetDetailedNbPeptidesUsed | Man page Source code |
| GetNbPeptidesUsed | Man page Source code |
| Get_AllComparisons | Man page Source code |
| GlobalQuantileAlignment | Man page Source code |
| GraphPepProt | Man page Source code |
| LH0 | Man page Source code |
| LH0.lm | Man page Source code |
| LH1 | Man page Source code |
| LH1.lm | Man page Source code |
| LOESS | Man page Source code |
| MeanCentering | Man page Source code |
| NumericalFiltering | Man page Source code |
| NumericalgetIndicesOfLinesToRemove | Man page Source code |
| QuantileCentering | Man page Source code |
| StringBasedFiltering | Man page Source code |
| StringBasedFiltering2 | Man page Source code |
| SumByColumns | Man page Source code |
| addOriginOfValue | Man page Source code |
| aggregateIter | Man page Source code |
| aggregateIterParallel | Man page Source code |
| aggregateMean | Man page Source code |
| aggregateSum | Man page Source code |
| aggregateTopn | Man page Source code |
| averageIntensities | Man page Source code |
| barplotEnrichGO_HC | Man page Source code |
| barplotGroupGO_HC | Man page Source code |
| boxPlotD_HC | Man page Source code |
| buildGraph | Man page Source code |
| check.conditions | Man page Source code |
| check.design | Man page Source code |
| checkClusterability | Man page Source code |
| classic1wayAnova | Man page Source code |
| compareNormalizationD_HC | Man page Source code |
| compute_t_tests | Man page Source code |
| corrMatrixD_HC | Man page Source code |
| createMSnset | Man page Source code |
| dapar_hc_ExportMenu | Man page Source code |
| dapar_hc_chart | Man page Source code |
| deleteLinesFromIndices | Man page Source code |
| densityPlotD | Man page Source code |
| densityPlotD_HC | Man page Source code |
| diffAnaComputeFDR | Man page Source code |
| diffAnaGetSignificant | Man page |
| diffAnaSave | Man page |
| diffAnaVolcanoplot | Man page Source code |
| diffAnaVolcanoplot_rCharts | Man page Source code |
| display.CC.visNet | Man page Source code |
| enrich_GO | Man page Source code |
| finalizeAggregation | Man page Source code |
| findMECBlock | Man page Source code |
| formatLimmaResult | Man page Source code |
| formatPHResults | Man page |
| fudge2LRT | Man page Source code |
| get.pep.prot.cc | Man page Source code |
| getIndicesConditions | Man page Source code |
| getIndicesOfLinesToRemove | Man page Source code |
| getListNbValuesInLines | Man page Source code |
| getNumberOf | Man page Source code |
| getNumberOfEmptyLines | Man page Source code |
| getPourcentageOfMV | Man page Source code |
| getProcessingInfo | Man page Source code |
| getProteinsStats | Man page Source code |
| getQuantile4Imp | Man page Source code |
| getTextForAggregation | Man page Source code |
| getTextForAnaDiff | Man page Source code |
| getTextForFiltering | Man page Source code |
| getTextForGOAnalysis | Man page Source code |
| getTextForHypothesisTest | Man page Source code |
| getTextForNewDataset | Man page Source code |
| getTextForNormalization | Man page Source code |
| getTextForpeptideImputation | Man page Source code |
| getTextForproteinImputation | Man page Source code |
| group_GO | Man page Source code |
| hc_logFC_DensityPlot | Man page Source code |
| hc_mvTypePlot2 | Man page Source code |
| heatmap.DAPAR | Man page |
| heatmapD | Man page Source code |
| histPValue_HC | Man page Source code |
| impute.detQuant | Man page Source code |
| impute.pa2 | Man page |
| inner.aggregate.iter | Man page Source code |
| inner.aggregate.topn | Man page Source code |
| inner.mean | Man page Source code |
| inner.sum | Man page Source code |
| is.MV | Man page Source code |
| is.OfType | Man page Source code |
| limmaCompleteTest | Man page Source code |
| listSheets | Man page Source code |
| make.contrast | Man page Source code |
| make.design | Man page Source code |
| make.design.1 | Man page Source code |
| make.design.2 | Man page Source code |
| make.design.3 | Man page Source code |
| mvFilter | Man page Source code |
| mvFilterFromIndices | Man page Source code |
| mvFilterGetIndices | Man page Source code |
| mvHisto_HC | Man page Source code |
| mvImage | Man page Source code |
| mvPerLinesHistoPerCondition_HC | Man page Source code |
| mvPerLinesHisto_HC | Man page Source code |
| my_hc_ExportMenu | Man page Source code |
| my_hc_chart | Man page Source code |
| nonzero | Man page Source code |
| normalizeMethods.dapar | Man page Source code |
| pepa.test | Man page Source code |
| plotJitter | Man page Source code |
| plotJitter_rCharts | Man page Source code |
| plotPCA_Eigen | Man page Source code |
| plotPCA_Eigen_hc | Man page Source code |
| plotPCA_Ind | Man page Source code |
| plotPCA_Var | Man page Source code |
| postHocTest | Man page |
| proportionConRev_HC | Man page Source code |
| rbindMSnset | Man page Source code |
| reIntroduceMEC | Man page Source code |
| readExcel | Man page Source code |
| removeLines | Man page Source code |
| samLRT | Man page Source code |
| saveParameters | Man page Source code |
| scatterplotEnrichGO_HC | Man page Source code |
| setMEC | Man page Source code |
| splitAdjacencyMat | Man page Source code |
| test.design | Man page Source code |
| translatedRandomBeta | Man page Source code |
| univ_AnnotDbPkg | Man page Source code |
| violinPlotD | Man page Source code |
| visualizeClusters | Man page Source code |
| vsn | Man page Source code |
| wrapper.CVDistD | Man page Source code |
| wrapper.CVDistD_HC | Man page Source code |
| wrapper.compareNormalizationD_HC | Man page Source code |
| wrapper.corrMatrixD_HC | Man page Source code |
| wrapper.dapar.impute.mi | Man page |
| wrapper.hc_mvTypePlot2 | Man page Source code |
| wrapper.heatmapD | Man page Source code |
| wrapper.impute.KNN | Man page Source code |
| wrapper.impute.detQuant | Man page Source code |
| wrapper.impute.fixedValue | Man page Source code |
| wrapper.impute.mle | Man page Source code |
| wrapper.impute.pa | Man page Source code |
| wrapper.impute.pa2 | Man page |
| wrapper.impute.slsa | Man page Source code |
| wrapper.mvHisto_HC | Man page Source code |
| wrapper.mvImage | Man page Source code |
| wrapper.mvPerLinesHistoPerCondition_HC | Man page Source code |
| wrapper.mvPerLinesHisto_HC | Man page Source code |
| wrapper.normalizeD | Man page Source code |
| wrapper.pca | Man page Source code |
| wrapperCalibrationPlot | Man page Source code |
| wrapperClassic1wayAnova | Man page Source code |
| wrapperRunClustering | Man page Source code |
| writeMSnsetToCSV | Man page Source code |
| writeMSnsetToExcel | Man page Source code |
