Uses of Enum Class
ubic.gemma.core.util.math.linearmodels.ContrastCoding

Packages that use ContrastCoding

Package	Description
ubic.gemma.core.analysis.expression.diff
ubic.gemma.core.util.math.linearmodels

Uses of ContrastCoding in ubic.gemma.core.analysis.expression.diff

Methods in ubic.gemma.core.analysis.expression.diff that return ContrastCoding

Modifier and Type	Method	Description
ContrastCoding	DifferentialExpressionAnalysisConfig.getContrastCoding(ExperimentalFactor factor)	How the given factor's levels are coded; ContrastCoding.TREATMENT unless set.

Methods in ubic.gemma.core.analysis.expression.diff that return types with arguments of type ContrastCoding

Modifier and Type	Method	Description
Map<ExperimentalFactor, ContrastCoding>	DifferentialExpressionAnalysisConfig.getContrastCoding()	How each categorical factor's levels are coded in the design matrix, which decides what its coefficients mean.

Methods in ubic.gemma.core.analysis.expression.diff with parameters of type ContrastCoding

Modifier and Type	Method	Description
void	DifferentialExpressionAnalysisConfig.setContrastCoding(ExperimentalFactor factor, ContrastCoding coding)	Choose how one factor's levels are coded.

Uses of ContrastCoding in ubic.gemma.core.util.math.linearmodels

Subclasses with type arguments of type ContrastCoding in ubic.gemma.core.util.math.linearmodels

Modifier and Type	Class	Description
enum	ContrastCoding	How a categorical factor's levels are turned into columns of a design matrix, which is what decides what each coefficient of that factor means.

Methods in ubic.gemma.core.util.math.linearmodels that return ContrastCoding

Modifier and Type	Method	Description
ContrastCoding	DesignMatrix.getContrastCoding(String factorName)	How the given factor's levels are coded into columns; ContrastCoding.TREATMENT unless set.
static ContrastCoding	ContrastCoding.valueOf(String name)	Returns the enum constant of this class with the specified name.
static ContrastCoding[]	ContrastCoding.values()	Returns an array containing the constants of this enum class, in the order they are declared.

Methods in ubic.gemma.core.util.math.linearmodels with parameters of type ContrastCoding

Modifier and Type	Method	Description
void	DesignMatrix.setContrastCoding(String factorName, ContrastCoding coding)	Choose how one categorical factor's levels are coded, and rebuild the design.