Uses of Interface
com.rubecula.darwin.core.Genome

Packages that use Genome

com.rubecula.darwin.core

Darwin

Uses of Genome in com.rubecula.darwin.core

Classes in com.rubecula.darwin.core that implement Genome

class	Genome_Abstract Abstract class implementing base methods for the Genome interface.
class	Genome_Diploid Concrete implementation of Genome representing the possible genetic information contained in a Darwinian system.
class	Genome_Haploid Concrete implementation of Genome representing the possible genetic information contained in a Darwinian system.

Fields in com.rubecula.darwin.core declared as Genome

protected Genome

Darwinian_Abstract._Genome The Genome of this Darwinian system (fixed).

Methods in com.rubecula.darwin.core that return Genome

Genome	Darwinian_Abstract.getGenome()
Genome	Population.getGenome() Method to get the genome for this population.
Genome	Darwinian.getGenome()
Genome	Population_Abstract.getGenome()

Methods in com.rubecula.darwin.core with parameters of type Genome

static Genotype	Genotype_Abstract.CombineGenotypes(Genome genome, Genotype x, Genotype y) Class method to combine two haploid genotypes into a new diploid genotype.
Genotype	Genotype_Abstract.createGamete(Genome genome)
Genotype	Genotype.createGamete(Genome genome) Method to create a "gamete", a single (haploid) set of genes, for example an X or Y chromosome in the human genome.
Phenotype	Genotype_Abstract.express(Genome genome)
Phenotype	Genotype.express(Genome genome) Method to express this genotype as a phenotype.
protected Genotype	Genotype_Abstract.mutate(Genome genome) Non-mutating method to mutate this Genotype and return a mutated copy.
protected Gene	Gene_Abstract.mutate(Genome genome) Method to get a mutated copy of a Gene.
Organism	Asexual.reproduce(String identifier, Genome genome) Method to perform asexual reproduction.
Organism	Organism_Asexual.reproduce(String identifier, Genome genome)
static Genotype	Genotype_Abstract.SeedGenotype(Genome genome, Map<String,Object> paramsGenotype, Map<String,Object> paramsGene) Class method to seed a new haploid genotype from the Genome.

Constructors in com.rubecula.darwin.core with parameters of type Genome

Darwinian_Abstract(String identifier, Genome genome, Phenome phenome, Census censusTaker, Mortality mortality, MateChoice chooser, Fecundity fecundity)
Constructor to create a Darwinian system with no populations.

Darwinian_Default(String identifier, Genome genome, Phenome phenome, Census censusTaker, double infantMortality, MateChoice chooser, Fecundity fecundity)
Constructor to create a Darwinian system with no populations, and with the default mortality implementer.

Darwinian_Default(String identifier, Genome genome, Phenome phenome, Census censusTaker, Mortality mortality, MateChoice chooser, Fecundity fecundity)
Constructor to create a Darwinian system with no populations.