| .checkNA |
Source code
|
| .fitExtractVarPartModel |
Source code
|
| .fitVarPartModel |
Source code
|
| .getAllUniContrasts |
Man page
Source code
|
| .getContrastExpressions |
Source code
|
| .getContrastInit |
Source code
|
| .getFixefNames |
Source code
|
| .isMixedModelFormula |
Man page
Source code
|
| .plotPercentBars |
Source code
|
| .plotVarPart |
Source code
|
| .sortCols |
Source code
|
| .standard_transform |
Man page
Source code
|
| .topTableT |
Source code
|
| BIC.MArrayLM |
Man page
Source code
|
| BIC.MArrayLM2 |
Man page
Source code
|
| ESS |
Man page
|
| ESS,lmerMod-method |
Man page
|
| MArrayLM2-class |
Man page
|
| VarParCIList-class |
Man page
|
| VarParFitList-class |
Man page
|
| [.MArrayLM2 |
Man page
|
| applyQualityWeights |
Man page
Source code
|
| as.data.frame.varPartResults |
Man page
Source code
|
| as.matrix |
Man page
|
| as.matrix,varPartResults-method |
Man page
|
| as_lmerModLmerTest2 |
Source code
|
| augmentPriorCount |
Man page
Source code
|
| calcVarPart |
Man page
|
| calcVarPart,glm-method |
Man page
|
| calcVarPart,glmer-method |
Man page
|
| calcVarPart,glmerMod-method |
Man page
|
| calcVarPart,lm-method |
Man page
|
| calcVarPart,lmerMod-method |
Man page
|
| calcVarPart,negbin-method |
Man page
|
| canCorPairs |
Man page
Source code
|
| classifyTestsF |
Man page
|
| classifyTestsF,MArrayLM2-method |
Man page
|
| colinearityScore |
Man page
Source code
|
| combineResults |
Source code
|
| countMatrix |
Man page
|
| createContrastL |
Source code
|
| create_eval_dream |
Source code
|
| cvp_glm |
Source code
|
| cvp_glmm |
Source code
|
| deviation |
Man page
|
| deviation,MArrayLM-method |
Man page
|
| diffVar |
Man page
|
| diffVar,MArrayLM-method |
Man page
|
| dream |
Man page
Source code
|
| dscchisq |
Man page
Source code
|
| eBayes,MArrayLM2-method |
Man page
|
| eval_contrasts |
Source code
|
| eval_vcov |
Source code
|
| eval_vcov_approx |
Source code
|
| eval_vcov_sqrt |
Source code
|
| eval_vcov_sqrt_approx |
Source code
|
| extractVarPart |
Man page
Source code
|
| fitExtractVarPartModel |
Man page
|
| fitExtractVarPartModel,EList-method |
Man page
|
| fitExtractVarPartModel,ExpressionSet-method |
Man page
|
| fitExtractVarPartModel,data.frame-method |
Man page
|
| fitExtractVarPartModel,matrix-method |
Man page
|
| fitExtractVarPartModel,sparseMatrix-method |
Man page
|
| fitVarPartModel |
Man page
|
| fitVarPartModel,EList-method |
Man page
|
| fitVarPartModel,ExpressionSet-method |
Man page
|
| fitVarPartModel,data.frame-method |
Man page
|
| fitVarPartModel,matrix-method |
Man page
|
| fitVarPartModel,sparseMatrix-method |
Man page
|
| geneCounts |
Man page
|
| geneExpr |
Man page
|
| getContrast |
Man page
Source code
|
| getDistrVar |
Source code
|
| getTreat |
Man page
|
| getTreat,MArrayLM-method |
Man page
|
| getTreat,MArrayLM2-method |
Man page
|
| getVarianceComponents |
Source code
|
| get_prediction |
Man page
|
| get_prediction,lm-method |
Man page
|
| get_prediction,lmerMod-method |
Man page
|
| ggColorHue |
Man page
Source code
|
| hasMissingData |
Source code
|
| hatvalues,MArrayLM-method |
Man page
|
| hatvalues,MArrayLM2-method |
Man page
|
| heatmap.3 |
Source code
|
| info |
Man page
|
| isPositiveDefinite |
Source code
|
| isRunableFormula |
Man page
Source code
|
| iterIndeces |
Source code
|
| iterRows |
Source code
|
| iterRowsSplit |
Source code
|
| logLik.MArrayLM |
Man page
Source code
|
| logLik.MArrayLM2 |
Man page
Source code
|
| makeContrastsDream |
Man page
Source code
|
| matrExp |
Source code
|
| metadata |
Man page
|
| mvTest |
Man page
|
| mvTest,MArrayLM,EList,integer-method |
Man page
|
| mvTest,MArrayLM,EList,list-method |
Man page
|
| mvTest,MArrayLM,EList,missing-method |
Man page
|
| mvTest,MArrayLM,EList,vector-method |
Man page
|
| mvTest,MArrayLM,matrix,ANY-method |
Man page
|
| mvTest,MArrayLM,matrix-method |
Man page
|
| mvTest,MArrayLM-method |
Man page
|
| mvTest,MArrayLM2-method |
Man page
|
| mvTest,mvTest_input,ANY,ANY-method |
Man page
|
| mvTest,mvTest_input,method |
Man page
|
| mvTest_input-class |
Man page
|
| plotCompareP |
Man page
Source code
|
| plotContrasts |
Man page
Source code
|
| plotCorrMatrix |
Man page
Source code
|
| plotCorrStructure |
Man page
Source code
|
| plotPercentBars |
Man page
|
| plotPercentBars,data.frame-method |
Man page
|
| plotPercentBars,matrix-method |
Man page
|
| plotPercentBars,varPartResults-method |
Man page
|
| plotStratify |
Man page
Source code
|
| plotStratifyBy |
Man page
Source code
|
| plotVarPart |
Man page
|
| plotVarPart,data.frame-method |
Man page
|
| plotVarPart,matrix-method |
Man page
|
| plotVarPart,varPartResults-method |
Man page
|
| plotVarianceEstimates |
Man page
Source code
|
| rdf |
Man page
Source code
|
| rdf.merMod |
Man page
Source code
|
| rdf_from_matrices |
Man page
Source code
|
| reOnly |
Man page
Source code
|
| residuals,MArrayLM-method |
Man page
|
| residuals,MArrayLM2-method |
Man page
|
| residuals,VarParFitList-method |
Man page
|
| residuals.MArrayLM2 |
Man page
Source code
|
| run_lmm_on_gene |
Source code
|
| run_model_check_mixed |
Source code
|
| shrinkageMetric |
Man page
Source code
|
| sign0 |
Source code
|
| sortCols |
Man page
|
| sortCols,data.frame-method |
Man page
|
| sortCols,matrix-method |
Man page
|
| sortCols,varPartResults-method |
Man page
|
| subset.MArrayLM2,MArrayLM2-method |
Man page
|
| topTable |
Man page
|
| topTable,MArrayLM-method |
Man page
|
| topTable,MArrayLM2-method |
Man page
|
| toptable,MArrayLM-method |
Man page
|
| toptable,MArrayLM2-method |
Man page
|
| varParFrac-class |
Man page
|
| varPartConfInf |
Man page
Source code
|
| varPartDEdata |
Man page
|
| varPartData |
Man page
|
| varPartResults-class |
Man page
|
| vcov,MArrayLM-method |
Man page
|
| vcov,MArrayLM2-method |
Man page
|
| vcovSqrt |
Man page
|
| vcovSqrt,MArrayLM-method |
Man page
|
| vcovSqrt,MArrayLM2-method |
Man page
|
| voomWithDreamWeights |
Man page
Source code
|
| weighted.var |
Source code
|
