/ 
Bio-Chado-Schema-0.20000
River stage one • 3 direct dependents • 3 total dependents
/ Bio::Chado::Schema::Result::Genetic::Genotype

NAME

Bio::Chado::Schema::Result::Genetic::Genotype

DESCRIPTION

Genetic context. A genotype is defined by a collection of features, mutations, balancers, deficiencies, haplotype blocks, or engineered constructs.

ACCESSORS

genotype_id

data_type: 'integer'
is_auto_increment: 1
is_nullable: 0
sequence: 'genotype_genotype_id_seq'

name

data_type: 'text'
is_nullable: 1

Optional alternative name for a genotype, for display purposes.

uniquename

data_type: 'text'
is_nullable: 0

The unique name for a genotype; typically derived from the features making up the genotype.

description

data_type: 'varchar'
is_nullable: 1
size: 255

type_id

data_type: 'integer'
is_foreign_key: 1
is_nullable: 0

RELATIONS

feature_genotypes

Type: has_many

Related object: Bio::Chado::Schema::Result::Genetic::FeatureGenotype

type

Type: belongs_to

Related object: Bio::Chado::Schema::Result::Cv::Cvterm

genotypeprops

Type: has_many

Related object: Bio::Chado::Schema::Result::Genetic::Genotypeprop

nd_experiment_genotypes

Type: has_many

Related object: Bio::Chado::Schema::Result::NaturalDiversity::NdExperimentGenotype

phendescs

Type: has_many

Related object: Bio::Chado::Schema::Result::Genetic::Phendesc

phenotype_comparison_genotype1s

Type: has_many

Related object: Bio::Chado::Schema::Result::Genetic::PhenotypeComparison

phenotype_comparison_genotype2s

Type: has_many

Related object: Bio::Chado::Schema::Result::Genetic::PhenotypeComparison

phenstatements

Type: has_many

Related object: Bio::Chado::Schema::Result::Genetic::Phenstatement

stock_genotypes

Type: has_many

Related object: Bio::Chado::Schema::Result::Stock::StockGenotype

create_genotypeprops

Usage: $set->create_genotypeprops({ baz => 2, foo => 'bar' });
Desc : convenience method to create genotype properties using cvterms
        from the ontology with the given name
Args : hashref of { propname => value, ...},
       options hashref as:
        {
          autocreate => 0,
             (optional) boolean, if passed, automatically create cv,
             cvterm, and dbxref rows if one cannot be found for the
             given genotypeprop name.  Default false.

          cv_name => cv.name to use for the given genotypeprops.
                     Defaults to 'genotype_property',

          db_name => db.name to use for autocreated dbxrefs,
                     default 'null',

          dbxref_accession_prefix => optional, default
                                     'autocreated:',
          definitions => optional hashref of:
              { cvterm_name => definition,
              }
           to load into the cvterm table when autocreating cvterms

           rank => force numeric rank. Be careful not to pass ranks that already exist
                   for the property type. The function will die in such case.

           allow_duplicate_values => default false.
              If true, allow duplicate instances of the same genotype
              and value in the properties of the genotype.  Duplicate
              values will have different ranks.
        }
Ret  : hashref of { propname => new genotypeprop object }