Uses of Interface
org.biojavax.ga.Organism

Packages that use Organism

Package	Description
org.biojavax.ga	Classes to provide a genetic algorithm framework
org.biojavax.ga.functions	GA functions A genetic algorithm requires a number of functions.
org.biojavax.ga.impl	Default implementations and abstract classes.

Uses of Organism in org.biojavax.ga

Methods in org.biojavax.ga that return Organism

Modifier and Type	Method and Description
Organism	Population.getOrganismByName(String name) Gets the specified organism
Organism	Organism.replicate(String name) Creates a replica of this Organism with a new name.

Methods in org.biojavax.ga with parameters of type Organism

Modifier and Type	Method and Description
void	Population.addOrganism(Organism org) Adds an Organism to the Population
void	Population.addOrganisms(Organism[] orgs) Adds several organisms to the population
void	Population.removeOrganism(Organism org) Kills off the organism
void	Population.removeOrganisms(Organism[] orgs) Removes all the Organisms in orgs

Uses of Organism in org.biojavax.ga.functions

Methods in org.biojavax.ga.functions with parameters of type Organism

Modifier and Type	Method and Description
double[]	FitnessFunction.fitness(Organism org, Population pop, GeneticAlgorithm genAlg) Calculates the fitness of org.

Uses of Organism in org.biojavax.ga.impl

Classes in org.biojavax.ga.impl that implement Organism

Modifier and Type	Class and Description
class	AbstractOrganism Abstract implementation of Organism.
class	SimpleOrganism A Simple Haploid Organism implementation

Methods in org.biojavax.ga.impl that return Organism

Modifier and Type	Method and Description
Organism	SimplePopulation.getOrganismByName(String name)
Organism	SimpleOrganism.replicate(String name)

Methods in org.biojavax.ga.impl with parameters of type Organism

Modifier and Type	Method and Description
void	AbstractPopulation.addOrganism(Organism org)
protected void	SimplePopulation.addOrganismImpl(Organism orgToAdd)
protected abstract void	AbstractPopulation.addOrganismImpl(Organism org)
void	AbstractPopulation.addOrganisms(Organism[] orgs)
void	AbstractPopulation.removeOrganism(Organism org)
protected void	SimplePopulation.removeOrganismImpl(Organism orgToRemove)
protected abstract void	AbstractPopulation.removeOrganismImpl(Organism org)
void	AbstractPopulation.removeOrganisms(Organism[] orgs)

Constructors in org.biojavax.ga.impl with parameters of type Organism

Constructor and Description
AbstractOrganism(Organism org, String name)
SimpleOrganism(Organism org, String name)