org::gel::mauve::analysis::LiteWeightFeature Class Reference

List of all members.


Public Member Functions
int	compareTo (LiteWeightFeature o)
int	getGenSrcIdx ()
String	getID ()
int	getLeft ()
int	getLength ()
String	getLocus ()
int	getRight ()
int	getStrand ()
String	getType ()
String	getUniqueID ()
int	hashCode ()
boolean	isReverse ()
	LiteWeightFeature (int genSrcIdx, int l, int r, int s, String ltag, String featType)
Static Public Member Functions
Comparator< LiteWeightFeature >	getLoopingComparator ()
Private Attributes
int	genSrcIdx
String	ID
int	left
String	locus
int	right
int	strand
String	type

Constructor & Destructor Documentation

org::gel::mauve::analysis::LiteWeightFeature::LiteWeightFeature ( int genSrcIdx,

int l,

int r,

int s,

String ltag,

String featType

) [inline]

Definition at line 17 of file LiteWeightFeature.java.
References ID, left, locus, right, strand, and type.

Member Function Documentation

int org::gel::mauve::analysis::LiteWeightFeature::compareTo ( LiteWeightFeature o ) [inline]

Definition at line 71 of file LiteWeightFeature.java.
References left, right, and strand.
Referenced by org::gel::mauve::analysis::OneToOneOrthologExporter::getFeaturesByType().

int org::gel::mauve::analysis::LiteWeightFeature::getGenSrcIdx ( ) [inline]

Definition at line 63 of file LiteWeightFeature.java.
Referenced by org::gel::mauve::analysis::SNP::relativePos(), and org::gel::mauve::analysis::Gap::relativePos().

String org::gel::mauve::analysis::LiteWeightFeature::getID ( ) [inline]

Definition at line 88 of file LiteWeightFeature.java.
Referenced by org::gel::mauve::analysis::BrokenCDS::toString().

int org::gel::mauve::analysis::LiteWeightFeature::getLeft ( ) [inline]

Definition at line 47 of file LiteWeightFeature.java.
References left.
Referenced by org::gel::mauve::analysis::OneToOneOrthologExporter::addOverlappingCDS(), org::gel::mauve::analysis::OneToOneOrthologExporter::export(), org::gel::mauve::analysis::OneToOneOrthologExporter::getBackboneSegs(), org::gel::mauve::analysis::BrokenCDS::getPeptideLength(), org::gel::mauve::analysis::SNP::relativePos(), and org::gel::mauve::analysis::Gap::relativePos().

int org::gel::mauve::analysis::LiteWeightFeature::getLength ( ) [inline]

Definition at line 31 of file LiteWeightFeature.java.
References left, and right.
Referenced by org::gel::mauve::analysis::BrokenCDS::BrokenCDS().

String org::gel::mauve::analysis::LiteWeightFeature::getLocus ( ) [inline]

Definition at line 43 of file LiteWeightFeature.java.
References locus.
Referenced by org::gel::mauve::analysis::OneToOneOrthologExporter::getFeaturesByType().

Comparator<LiteWeightFeature> org::gel::mauve::analysis::LiteWeightFeature::getLoopingComparator ( ) [inline, static]

Definition at line 92 of file LiteWeightFeature.java.
References left, right, and strand.

int org::gel::mauve::analysis::LiteWeightFeature::getRight ( ) [inline]

Definition at line 51 of file LiteWeightFeature.java.
References right.
Referenced by org::gel::mauve::analysis::OneToOneOrthologExporter::addOverlappingCDS(), org::gel::mauve::analysis::OneToOneOrthologExporter::export(), org::gel::mauve::analysis::OneToOneOrthologExporter::getBackboneSegs(), org::gel::mauve::analysis::BrokenCDS::getPeptideLength(), org::gel::mauve::analysis::SNP::relativePos(), and org::gel::mauve::analysis::Gap::relativePos().

int org::gel::mauve::analysis::LiteWeightFeature::getStrand ( ) [inline]

Definition at line 59 of file LiteWeightFeature.java.
References strand.
Referenced by org::gel::mauve::analysis::SNP::relativePos().

String org::gel::mauve::analysis::LiteWeightFeature::getType ( ) [inline]

Definition at line 67 of file LiteWeightFeature.java.
References type.

String org::gel::mauve::analysis::LiteWeightFeature::getUniqueID ( ) [inline]

Definition at line 39 of file LiteWeightFeature.java.
References ID.

int org::gel::mauve::analysis::LiteWeightFeature::hashCode ( ) [inline]

Definition at line 35 of file LiteWeightFeature.java.
References ID.

boolean org::gel::mauve::analysis::LiteWeightFeature::isReverse ( ) [inline]

Definition at line 55 of file LiteWeightFeature.java.
References strand.