ubic.erminej.data

Class Probe

java.lang.Object

ubic.erminej.data.Probe

public class Probe
extends Object

Represents an assayable item such as a microarray probe (or probeset) that can refer to more than one gene.

Version:

$Id: Probe.java,v 1.5 2013/05/20 02:21:17 paul Exp $

Author:

paul

Constructor Summary

Constructors

Constructor and Description
Probe(String probeId)
Probe(String name, String description)
Probe(String name, String description, Collection<Gene> genes)

Method Summary

Methods

Modifier and Type	Method and Description
protected void	addGene(Gene g)
void	addToGeneSet(GeneSetTerm geneSet)
boolean	equals(Object obj)
String	getDescription()
Gene	getGene()
Collection<Gene>	getGenes()
Collection<GeneSetTerm>	getGeneSets()
String	getName()
boolean	hasAnnots()
int	hashCode()
protected void	removeGeneSet(GeneSetTerm t)
void	setGene(Gene g) Assumes we only have one gene per probe.
void	setGenes(Collection<Gene> genes)
void	setGeneSets(Collection<GeneSetTerm> geneSets)
String	toString()

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Detail

Probe

public Probe(String probeId)

Probe

public Probe(String name,
     String description)

Probe

public Probe(String name,
     String description,
     Collection<Gene> genes)

Method Detail

addToGeneSet

public void addToGeneSet(GeneSetTerm geneSet)

Parameters:

geneSet -

equals

public boolean equals(Object obj)

Overrides:

equals in class Object

getDescription

public String getDescription()

getGene

public Gene getGene()

getGenes

public Collection<Gene> getGenes()

getGeneSets

public Collection<GeneSetTerm> getGeneSets()

getName

public String getName()

hasAnnots

public boolean hasAnnots()

hashCode

public int hashCode()

Overrides:

hashCode in class Object

setGene

public void setGene(Gene g)

Assumes we only have one gene per probe.

Parameters:

g -

setGenes

public void setGenes(Collection<Gene> genes)

setGeneSets

public void setGeneSets(Collection<GeneSetTerm> geneSets)

toString

public String toString()

Overrides:

toString in class Object

addGene

protected void addGene(Gene g)

removeGeneSet

protected void removeGeneSet(GeneSetTerm t)