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    • Andreas Kusalananda Kähäri's avatar
      Updated documentation. · 64e4cb06
      Andreas Kusalananda Kähäri authored
      Renaming 'ontology_term' table into 'term'.
      64e4cb06
    • Andreas Kusalananda Kähäri's avatar
      Updated documentation. · 6b439bc9
      Andreas Kusalananda Kähäri authored
      6b439bc9
    • Andreas Kusalananda Kähäri's avatar
      Add fetch_all_by_GOTerm(): · 0318c6c2
      Andreas Kusalananda Kähäri authored
        Arg [1]   : Bio::EnsEMBL::OntologyTerm
                    The GO term for which genes should be fetched.
      
        Example:  @genes = @{
                    $gene_adaptor->fetch_all_by_GOTerm(
                      $go_adaptor->fetch_by_accession('GO:0030326') ) };
      
        Description   : Retrieves a list of genes that are associated with
                        the given GO term, or with any of its descendent
                        GO terms.  The genes returned are in their native
                        coordinate system, i.e. in the coordinate system
                        in which they are stored in the database.  If
                        another coordinate system is required then the
                        Gene::transfer or Gene::transform method can be
                        used.
      
        Return type   : listref of Bio::EnsEMBL::Gene
      
      
      (similarly for TranscriptAdaptor and TranslationAdaptor)
      0318c6c2
    • Jan-hinnerk Vogel's avatar
      · 3fdc2d54
      Jan-hinnerk Vogel authored
      old behaviour restored after it was changed by whs / graef in january to not update the table.
      option -update changed to -noupdate
      3fdc2d54