| geneFilter |
filter an ExpressionSet using different methods |
| getAdjP |
access the adjPVal slot from regressResult or interactionResult class |
| getAdjP,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getAdjP,regressResult-method |
Class to Contain the Regression Result |
| getAnnotation |
access the annotation slot from the regressResult or interactionResult slot |
| getAnnotation,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getAnnotation,regressResult-method |
Class to Contain the Regression Result |
| getCompare1 |
Access the Compare1 slot from the contrastMatrix |
| getCompare1,contrastMatrix-method |
Class to Contain the Contrast Matrix that Used for Linear Regression |
| getCompare2 |
Access the compare2 slot from the contrastMatrix class |
| getCompare2,contrastMatrix-method |
Class to Contain the Contrast Matrix that Used for Linear Regression |
| getContrast |
Access the contrast matrix from the contrastMatrix class |
| getContrast,contrastMatrix-method |
Class to Contain the Contrast Matrix that Used for Linear Regression |
| getContrast,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getContrast,regressResult-method |
Class to Contain the Regression Result |
| getCovariates |
Accessing the covariates from the designMatrix class |
| getCovariates,designMatrix-method |
Class to Contain the Design Matrix that Used for Linear Regression |
| getDesign |
Access the design matrix from the designMatrix class |
| getDesign,designMatrix-method |
Class to Contain the Design Matrix that Used for Linear Regression |
| getF |
access the foldChange slot from regressionResult or interactionResult class |
| getF,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getF,regressResult-method |
Class to Contain the Regression Result |
| getFC |
Access the foldChange slot from the regressResult or interactionResult class |
| getFC,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getFC,regressResult-method |
Class to Contain the Regression Result |
| getFCCutoff |
Access the significantFCCutoff slot from the regressResult or interactionResult class |
| getFCCutoff,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getFCCutoff,regressResult-method |
Class to Contain the Regression Result |
| getFileName,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getFileName,regressResult-method |
Class to Contain the Regression Result |
| getFilterMethod |
Access the filterMethod slot from the regressResult or interactionResult class |
| getFilterMethod,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getFilterMethod,regressResult-method |
Class to Contain the Regression Result |
| getID |
access the ID slot from the regressResult or interactionResult class |
| getID,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getID,regressResult-method |
Class to Contain the Regression Result |
| getIndex |
Access the SignificantIndex slot from the regressResult or interactionResult class |
| getIndex,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getIndex,regressResult-method |
Class to Contain the Regression Result |
| getInteraction |
Access the interaction slot from the contrastMatrix class |
| getInteraction,contrastMatrix-method |
Class to Contain the Contrast Matrix that Used for Linear Regression |
| getIntIndex |
Access the IntIndex slot from the designMatrix class |
| getIntIndex,designMatrix-method |
Class to Contain the Design Matrix that Used for Linear Regression |
| getLength |
Calculate the Length of interactionResult class |
| getLength,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getLevel |
Access the level slot from the contrastMatrix class |
| getLevel,contrastMatrix-method |
Class to Contain the Contrast Matrix that Used for Linear Regression |
| getNormalizationMethod |
Access the significantIndex slot from the regressResult or interactionResult class |
| getNormalizationMethod,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getNormalizationMethod,regressResult-method |
Class to Contain the Regression Result |
| getP |
Access the pValue slot from regressResult or interactionResult class |
| getP,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getP,regressResult-method |
Class to Contain the Regression Result |
| getPCutoff |
Access the significantPvalueCutoff slot from regressResult or interactionResult class |
| getPCutoff,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| getPCutoff,regressResult-method |
Class to Contain the Regression Result |
| getTarget |
Access the target slots from the designMatrix class |
| getTarget,designMatrix-method |
Class to Contain the Design Matrix that Used for Linear Regression |
| selectSigGene |
select differentially expressed genes from the regressResult class |
| selectSigGene,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| selectSigGene,regressResult-method |
Class to Contain the Regression Result |
| selectSigGeneInt |
select differentially expressed genes from the interactionResult class |
| show,contrastMatrix-method |
Class to Contain the Contrast Matrix that Used for Linear Regression |
| show,designMatrix-method |
Class to Contain the Design Matrix that Used for Linear Regression |
| show,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| show,regressResult-method |
Class to Contain the Regression Result |
| Sort |
Sort a regressionResult or an interactionResult |
| Sort,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| Sort,regressResult-method |
Class to Contain the Regression Result |
| summary,interactionResult-method |
Class to Contain the Regression Result Based on An Interaction Model |
| summary,regressResult-method |
Class to Contain the Regression Result |