Man pages for PNNL-Comp-Mass-Spec/RomicsProcessor
omics-oriented package for reproducible and sharable data processing pipelines
| distribBoxplot | distribBoxplot() |
| distribHistogram | distribHistogram() |
| distribHistogramGlobal | distribHistogramGlobal() |
| distribJitter | distribJitter() |
| distribRidges | distribRidges() |
| distribSina | distribSina() |
| distribViolin | distribViolin() |
| Example_processed_romics_object | Example_unprocessed_romics_object |
| Example_romics_data | Example_romics_data |
| Example_romics_metadata | Example_romics_metadata |
| extractMaxQuant | extractMaxQuant() |
| extractMaxQuantIDs | extractMaxQuantIDs() |
| factorCountLevels | factorCountLevels() |
| featureSubset | featureSubset() |
| getTrend | getTrend() |
| imputeMinDiv2 | imputeMinDiv2() |
| imputeMissing | imputeMissing() |
| imputeMissingEval | imputeMissingEval() |
| indPCA3D | indPCA3D() |
| indPCAplot | indPCAplot() |
| is.romics_object | is.romics_object() |
| lmp | lmp() |
| log10transform | log10transform() |
| log2transform | log2transform() |
| medianCenterSample | medianCenterSample() |
| medianNormFactor | medianNormFactor() |
| medianNormSample | medianNormSample() |
| metadataRelations | metadata_relations() |
| pFrequencyPlot | pFrequencyPlot() |
| romicsAddDependency | romicsAddDependency() |
| romicsANOVA | romicsANOVA() |
| romicsApplyPipeline | romicsApplyPipeline() |
| RomicsBatchCorrection | romicsBatchCorrection() |
| romicsCalculatedStats | romicsCalculatedStats() |
| romicsChangeFactor | romicsChangeFactor() |
| romicsChangeIDs | romicsChangeIDs() |
| romicsCombineObjects | romicsCombineObjects() |
| romicsCorrelation | romicsCorrelation() |
| romicsCreateDependencies | romicsCreateDependencies() |
| romicsCreateObject | romicsCreateObject() |
| romicsCreatePipeline | romicsCreatePipeline() |
| RomicsCVs | romicsCVs() |
| romicsDeleteRowMissing | romicsDeleteRowMissing() |
| romicsExportData | romicsOutputData() |
| romicsExtractFactor | romicsExtractFactor() |
| romicsFactorNames | romicsFactorNames() |
| romicsFilterMissing | romicsFilterMissing() |
| romicsFilterVariable | romicsFilterVariable() |
| romicsGlmBinomial | romicsGlmBinomial() |
| romicsHclust | romicsHclust() |
| romicsHeatmap | romicsHeatmap() |
| romicsLogCheck | romicsLogCheck() |
| romicsMean | romicsMean() |
| romicsOutlierEval | romics_outlier_eval() |
| romicsOutlierRemove | Romics_outlier_remove() |
| romicsPCA | romicsPCA() |
| romicsPlotMissing | romicsPlotMissing() |
| RomicsPmartR | romicsPmartR() |
| romicsRestoreMissing | romicsRestoreMissing() |
| romicsSampleNameFromFactor | romicsSampleNameFromFactor() |
| romicsSd | romicsSd() |
| romicsSteps | romicsSteps() |
| romicsSubset | romicsSubset() |
| romicsTrend | romicsTrend() |
| romicsTrendHeatmap | romicsTrendHeatmap() |
| romicsTtest | romicsTtest() |
| romicsUmap | romicsUmap() |
| romicsUmapPlot | romicsUmapPlot() |
| romicsUpdateColor | romicsUpdateColor() |
| romicsUpdateSteps | romicsUpdateSteps() |
| romicsVariableHclust | romicsVariableHclust() |
| romicsVolcano | romicsVolcano() |
| romicsWilcoxTest | romicsWilcoxTest() |
| romicsZeroToMissing | romicsZeroToMissing() |
| romicsZscores | romicsZscores() |
| singleVariablePlot | singleVariablePlot() |
| singleVariableTrend | singleVariableTrend() |
| theme_ROP | theme_ROP |
| unlog10data | unlog10data() |
| unlog2data | unlog2data() |
