gov.usda.gdpc
Interface PhenotypeGroup

All Superinterfaces:

java.util.Collection, DBElementGroup, Group, java.util.List

All Known Implementing Classes:

AbstractPhenotypeGroup

public interface PhenotypeGroup

extends DBElementGroup

Group of phenotypes.

Author:

terryc

Method Summary

EnvironmentExperimentGroup	getEnvironmentExperimentGroup() Returns the group of environment experiments associated with this group of phenotypes.
Phenotype	getPhenotype(java.lang.String dataSource, Taxon taxon, EnvironmentExperiment experiment, PhenotypeOntology ontology) Gets the phenotype having the given taxon, environment experiment, ontology, and data source.
PhenotypeGroup	getPhenotypeGroup(PhenotypeFilter filter) Get the phenotype group from this group which match the critera specified by the filter.
TaxonGroup	getTaxonGroup() Returns the group of taxon associated with this group of phenotypes.
int	numEnvironmentExperiments() Return the number of environment experiments.
int	numTaxa() Return the number of taxa.

Methods inherited from interface gov.usda.gdpc.DBElementGroup

getDBElements, getDefinedProperties, getDistinctProperties, getType, index

Methods inherited from interface java.util.List

add, add, addAll, addAll, clear, contains, containsAll, equals, get, hashCode, indexOf, isEmpty, iterator, lastIndexOf, listIterator, listIterator, remove, remove, removeAll, retainAll, set, size, subList, toArray, toArray

Method Detail

getTaxonGroup

public TaxonGroup getTaxonGroup()

Returns the group of taxon associated with this group of phenotypes.

Returns:

taxon group

getEnvironmentExperimentGroup

public EnvironmentExperimentGroup getEnvironmentExperimentGroup()

Returns the group of environment experiments associated with this group of phenotypes.

Returns:

environment experiment group

getPhenotype

public Phenotype getPhenotype(java.lang.String dataSource,
                              Taxon taxon,
                              EnvironmentExperiment experiment,
                              PhenotypeOntology ontology)

Gets the phenotype having the given taxon, environment experiment, ontology, and data source.

Parameters:

dataSource - data source

taxon - taxon

experiment - environment experiment

ontology - phenotype ontology

Returns:

phenotype. null if no matching phenotype

getPhenotypeGroup

public PhenotypeGroup getPhenotypeGroup(PhenotypeFilter filter)

Get the phenotype group from this group which match the critera specified by the filter.

Parameters:

filter - phenotype filter

Returns:

phenotype group

numTaxa

public int numTaxa()

Return the number of taxa.

Returns:

number of taxa.

numEnvironmentExperiments

public int numEnvironmentExperiments()

Return the number of environment experiments.

Returns:

number of environment experiments.