Package ubic.gemma.model.analysis.expression.diff

Class ContrastResult

java.lang.Object
ubic.gemma.model.analysis.expression.diff.ContrastResult
All Implemented Interfaces:
Identifiable
public class ContrastResult extends Object implements Identifiable
Represents a contrast between "conditions". In practice, this is the comparison between a factor level and the baseline; for interactions it is the difference of comparisons.

  • Constructor Details

    • ContrastResult

      public ContrastResult()

  • Method Details

    • getCoefficient

      @Nullable public Double getCoefficient()
      Returns:
      The estimated value from the fit

    • setCoefficient

      public void setCoefficient(@Nullable Double coefficient)

    • getFactorValue

      @Nullable public FactorValue getFactorValue()
      Returns:
      The factorValue for the group of samples that is being compared to baseline. The baseline itself is a property of the ResultSet. For factors that have continuous values, this will be null.

    • setFactorValue

      public void setFactorValue(@Nullable FactorValue factorValue)

    • getId

      public Long getId()
      Specified by:
      getId in interface Identifiable

    • setId

      public void setId(Long id)

    • getLogFoldChange

      @Nullable public Double getLogFoldChange()
      Returns:
      The fold change relative to the baseline, based on the fitted values. log2-transformed. This will be the same as the coefficient if the data were log transformed when analyzed. This might be null if it wasn't computed.

    • setLogFoldChange

      public void setLogFoldChange(@Nullable Double logFoldChange)

    • getPvalue

      @Nullable public Double getPvalue()

    • setPvalue

      public void setPvalue(@Nullable Double pvalue)

    • getSecondFactorValue

      @Nullable public FactorValue getSecondFactorValue()

    • setSecondFactorValue

      public void setSecondFactorValue(@Nullable FactorValue secondFactorValue)

    • getTstat

      @Nullable public Double getTstat()
      Returns:
      Serves as the effect size as well as an indicator of the direction of change relative to the baseline

    • setTstat

      public void setTstat(@Nullable Double tstat)

    • equals

      public boolean equals(Object object)
      Overrides:
      equals in class Object
      Returns:
      true if the argument is an ContrastResult instance and all identifiers for this entity equal the identifiers of the argument entity. Returns false otherwise.

    • toString

      public String toString()
      Overrides:
      toString in class Object