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< LiteWeightFeaturegetLoopingComparator ()

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.


Member Data Documentation

int org::gel::mauve::analysis::LiteWeightFeature::genSrcIdx [private]
 

Definition at line 8 of file LiteWeightFeature.java.

String org::gel::mauve::analysis::LiteWeightFeature::ID [private]
 

Definition at line 15 of file LiteWeightFeature.java.

Referenced by getUniqueID(), hashCode(), and LiteWeightFeature().

int org::gel::mauve::analysis::LiteWeightFeature::left [private]
 

Definition at line 9 of file LiteWeightFeature.java.

Referenced by compareTo(), getLeft(), getLength(), getLoopingComparator(), and LiteWeightFeature().

String org::gel::mauve::analysis::LiteWeightFeature::locus [private]
 

Definition at line 12 of file LiteWeightFeature.java.

Referenced by getLocus(), and LiteWeightFeature().

int org::gel::mauve::analysis::LiteWeightFeature::right [private]
 

Definition at line 10 of file LiteWeightFeature.java.

Referenced by compareTo(), getLength(), getLoopingComparator(), getRight(), and LiteWeightFeature().

int org::gel::mauve::analysis::LiteWeightFeature::strand [private]
 

Definition at line 11 of file LiteWeightFeature.java.

Referenced by compareTo(), getLoopingComparator(), getStrand(), isReverse(), and LiteWeightFeature().

String org::gel::mauve::analysis::LiteWeightFeature::type [private]
 

Definition at line 13 of file LiteWeightFeature.java.

Referenced by getType(), and LiteWeightFeature().


The documentation for this class was generated from the following file:
Generated on Mon Aug 19 06:03:49 2013 for Mauve by doxygen 1.3.6