Package ubic.gemma.model.genome.gene

Class Multifunctionality

    • Constructor Detail

      • Multifunctionality

        public Multifunctionality()

    • Method Detail

      • getNumGoTerms

        public Integer getNumGoTerms()
        Returns:
        The number of GO terms the gene has, after propagation, but excluding the roots

      • setNumGoTerms

        public void setNumGoTerms​(Integer numGoTerms)

      • getRank

        public Double getRank()
        Returns:
        The relative rank of the gene among other genes in the taxon, based on the multifunctionality score (not the number of GO terms, though that would generally give a similar result). A rank of 1 means the "most multifunctional", while 0 is assigned to the least multifunctional gene.

      • setRank

        public void setRank​(Double rank)

      • getScore

        public Double getScore()
        Returns:
        The multifunctionality of the gene, as scored using the "optimal ranking" method of Gillis and Pavlidis (2011). It is a value from 0 to 1, where 1 is the highest multifunctionality. Note that this score is not very useful by itself as it really only makes sense as a relative measure among genes. Thus the rank should be used for display.

      • setScore

        public void setScore​(Double score)

      • hashCode

        public int hashCode()
        Description copied from class: AbstractIdentifiable
        Important note: Never use the ID in the hashCode() implementation since it can be assigned when the object is persisted.
        Specified by:
        hashCode in class AbstractIdentifiable

      • equals

        public boolean equals​(Object object)
        Description copied from class: AbstractIdentifiable
        Important note: Two objects with the same class and non-null ID must be considered equal. If one or both IDs are nulls, the rest of the state can be used to determine equality.
        Specified by:
        equals in class AbstractIdentifiable