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

Class DifferentialExpressionAnalysisResult

  • All Implemented Interfaces:
    Serializable, Identifiable
    public class DifferentialExpressionAnalysisResult
extends AnalysisResult
implements Serializable
    Result of an analysis of differences in expression levels -- a single test (e.g., for one gene or one probe), for one factor. These statistics are based on ANOVA-style analysis, with a collection of ContrastResults storing the associated contrasts.
    See Also:
    Serialized Form

    • Constructor Detail

      • DifferentialExpressionAnalysisResult

        public DifferentialExpressionAnalysisResult()
        No-arg constructor added to satisfy javabean contract

    • Method Detail

      • hashCode

        public int hashCode()
        Overrides:
        hashCode in class Object

      • getContrasts

        public Set<ContrastResult> getContrasts()
        Returns:
        Contrasts for this result. Depending on configuration, this might only be stored if the Result itself is significant at some given threshold (e.g., nominal p-value of 0.05) (but default is to store everything)

      • getCorrectedPvalue

        public Double getCorrectedPvalue()
        Returns:
        A false discovery estimate (qvalue)

      • setCorrectedPvalue

        public void setCorrectedPvalue​(Double correctedPvalue)

      • getCorrectedPValueBin

        public Integer getCorrectedPValueBin()
        Returns:
        an indexable parameter for the corrected qvalue, to speed searches.

      • setCorrectedPValueBin

        public void setCorrectedPValueBin​(Integer correctedPValueBin)

      • setId

        public void setId​(Long id)

      • getPvalue

        public Double getPvalue()
        Returns:
        The p-value from the test for rejection of the null hypothesis of no effect

      • setPvalue

        public void setPvalue​(Double pvalue)

      • getRank

        public Double getRank()
        Returns:
        The fractional rank of this result, relative to the others in the ResultSet. Thus the best (lowest p-value) will have a fractional rank of 0.0, the worst wil lbe 1.0.

      • setRank

        public void setRank​(Double rank)