umcg.genetica.io.gtf

Class GffElement

java.lang.Object

umcg.genetica.io.gtf.GffElement

All Implemented Interfaces:

Range, GenomicRange

public class GffElement
extends Object
implements GenomicRange

Author:

Patrick Deelen

Constructor Summary

Constructors

Constructor and Description
GffElement(String seqname, String source, String feature, int start, int end, float score, char strand, int frame, Map<String,String> attributes)

Method Summary

Modifier and Type	Method and Description
Map<String,String>	getAttributes()
String	getAttributeValue(String attributeName)
int	getEnd() Inclusive
String	getFeature()
int	getFrame()
float	getScore()
String	getSeqname()
String	getSource()
int	getStart() Inclusive
char	getStrand()
boolean	hasAttribute(String attributeName)
String	toString()

Methods inherited from class java.lang.Object

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

Constructor Detail

GffElement

public GffElement(String seqname,
                  String source,
                  String feature,
                  int start,
                  int end,
                  float score,
                  char strand,
                  int frame,
                  Map<String,String> attributes)

Method Detail

getSeqname

public String getSeqname()

Specified by:

getSeqname in interface GenomicRange

getSource

public String getSource()

getFeature

public String getFeature()

getStart

public int getStart()

Description copied from interface: Range

Inclusive

Specified by:

getStart in interface Range

Returns:

getEnd

public int getEnd()

Description copied from interface: Range

Inclusive

Specified by:

getEnd in interface Range

Returns:

getScore

public float getScore()

getStrand

public char getStrand()

getFrame

public int getFrame()

getAttributes

public Map<String,String> getAttributes()

hasAttribute

public boolean hasAttribute(String attributeName)

getAttributeValue

public String getAttributeValue(String attributeName)

toString

public String toString()

Overrides:

toString in class Object