DifferentialExpressionAnalysisConfig (Gemma 1.32.0 API)

java.lang.Object
- ubic.gemma.core.analysis.expression.diff.DifferentialExpressionAnalysisConfig

```
public class DifferentialExpressionAnalysisConfig
extends Object
```
Holds the settings used for differential expression analysis, and defines some defaults.

Author:

keshav

Field Summary

Fields
Modifier and Type Field Description

static boolean DEFAULT_EBAYES
Default value for whether empirical Bayes moderation of test statistics should be used.

Constructor Summary

Constructors
Constructor Description

DifferentialExpressionAnalysisConfig()

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`addBaseLineFactorValues(Map<ExperimentalFactor,FactorValue> baselineConditions)`
`void`	`addFactorsToInclude(Collection<ExperimentalFactor> factors)`	Add a collection of factors to include in the analysis.
`void`	`addInteractionToInclude(Collection<ExperimentalFactor> factors)`	Add an interaction of two factors to include in the analysis.
`DifferentialExpressionAnalysis`	`toAnalysis()`
`String`	`toString()`

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

- Field Detail
  - DEFAULT_EBAYES
```
public static final boolean DEFAULT_EBAYES
```
    Default value for whether empirical Bayes moderation of test statistics should be used.
    
    See Also:
    
    Constant Field Values
- Constructor Detail
  - DifferentialExpressionAnalysisConfig
```
public DifferentialExpressionAnalysisConfig()
```
- Method Detail
  - addFactorsToInclude
```
public void addFactorsToInclude(Collection<ExperimentalFactor> factors)
```
    Add a collection of factors to include in the analysis.
  - addInteractionToInclude
```
public void addInteractionToInclude(Collection<ExperimentalFactor> factors)
```
    Add an interaction of two factors to include in the analysis.
  - addBaseLineFactorValues
```
public void addBaseLineFactorValues(Map<ExperimentalFactor,FactorValue> baselineConditions)
```
  - toAnalysis
```
public DifferentialExpressionAnalysis toAnalysis()
```
    Returns:
    
    representation of this analysis with populated protocol holding information from this.
  - toString
```
public String toString()
```
    Overrides:
    
    toString in class Object