umcg.genetica.containers

Class Transcript

java.lang.Object

umcg.genetica.containers.Transcript

public class Transcript
extends Object

Author:

harmjan

Constructor Summary

Constructors

Constructor and Description
Transcript()

Method Summary

Modifier and Type	Method and Description
void	addExon(Exon currExo)
int	getEnd()
HashMap<String,Exon>	getExons()
Exon[]	getExonsRanked()
int	getLength()
String	getName()
Gene	getParentGene()
String	getProtein()
int	getStart()
int	getStrand()
void	setEnd(int end)
void	setExonRank(Exon currExo, Integer exonrankintranscript)
void	setExons(HashMap<String,Exon> exons)
void	setName(String name)
void	setParentChromosome(Chromosome currChr)
void	setParentGene(Gene parentGene)
void	setProtein(String protein)
void	setStart(int start)
void	setStrand(int strand)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

Transcript

public Transcript()

Method Detail

getParentGene

public Gene getParentGene()

Returns:

the parentGene

setParentGene

public void setParentGene(Gene parentGene)

Parameters:

parentGene - the parentGene to set

getExons

public HashMap<String,Exon> getExons()

Returns:

the exons

setExons

public void setExons(HashMap<String,Exon> exons)

Parameters:

exons - the exons to set

getStart

public int getStart()

Returns:

the start

setStart

public void setStart(int start)

Parameters:

start - the start to set

getEnd

public int getEnd()

Returns:

the end

setEnd

public void setEnd(int end)

Parameters:

end - the end to set

getStrand

public int getStrand()

Returns:

the strand

setStrand

public void setStrand(int strand)

Parameters:

strand - the strand to set

getName

public String getName()

Returns:

the name

setName

public void setName(String name)

Parameters:

name - the name to set

addExon

public void addExon(Exon currExo)

setProtein

public void setProtein(String protein)

getProtein

public String getProtein()

getExonsRanked

public Exon[] getExonsRanked()

getLength

public int getLength()

setParentChromosome

public void setParentChromosome(Chromosome currChr)

setExonRank

public void setExonRank(Exon currExo,
                        Integer exonrankintranscript)