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hal::Rearrangement Member List

This is the complete list of members for hal::Rearrangement, including all inherited members.

Complex enum value (defined in hal::Rearrangement) | hal::Rearrangement |
counted_ptr< const Rearrangement > (defined in hal::Rearrangement) | hal::Rearrangement | friend
counted_ptr< Rearrangement > (defined in hal::Rearrangement) | hal::Rearrangement | friend
Deletion enum value (defined in hal::Rearrangement) | hal::Rearrangement |
Duplication enum value (defined in hal::Rearrangement) | hal::Rearrangement |
Gap enum value (defined in hal::Rearrangement) | hal::Rearrangement |
getAtomic() const =0 (defined in hal::Rearrangement) | hal::Rearrangement | pure virtual
getDeletedRange() const =0 | hal::Rearrangement | pure virtual
getDuplicatedRange() const =0 | hal::Rearrangement | pure virtual
getGapLengthThreshold() const =0 | hal::Rearrangement | pure virtual
getID() const =0 | hal::Rearrangement | pure virtual
getInsertedRange() const =0 | hal::Rearrangement | pure virtual
getLeftBreakpoint() const =0 | hal::Rearrangement | pure virtual
getLength() const =0 | hal::Rearrangement | pure virtual
getNThreshold() const =0 (defined in hal::Rearrangement) | hal::Rearrangement | pure virtual
getNumContainedGapBases() const =0 | hal::Rearrangement | pure virtual
getNumContainedGaps() const =0 | hal::Rearrangement | pure virtual
getRightBreakpoint() const =0 | hal::Rearrangement | pure virtual
ID enum name (defined in hal::Rearrangement) | hal::Rearrangement |
identifyDeletionFromLeftBreakpoint(TopSegmentIteratorConstPtr topSegment)=0 | hal::Rearrangement | pure virtual
identifyFromLeftBreakpoint(TopSegmentIteratorConstPtr topSegment)=0 | hal::Rearrangement | pure virtual
identifyInsertionFromLeftBreakpoint(TopSegmentIteratorConstPtr topSegment)=0 | hal::Rearrangement | pure virtual
identifyNext()=0 | hal::Rearrangement | pure virtual
Insertion enum value (defined in hal::Rearrangement) | hal::Rearrangement |
Invalid enum value (defined in hal::Rearrangement) | hal::Rearrangement |
Inversion enum value (defined in hal::Rearrangement) | hal::Rearrangement |
Missing enum value (defined in hal::Rearrangement) | hal::Rearrangement |
Nothing enum value (defined in hal::Rearrangement) | hal::Rearrangement |
setAtomic(bool atomic)=0 | hal::Rearrangement | pure virtual
setGapLengthThreshold(hal_size_t threshold)=0 | hal::Rearrangement | pure virtual
setNThreshold(double nThreshold)=0 (defined in hal::Rearrangement) | hal::Rearrangement | pure virtual
Translocation enum value (defined in hal::Rearrangement) | hal::Rearrangement |
Transposition enum value (defined in hal::Rearrangement) | hal::Rearrangement |
~Rearrangement()=0 | hal::Rearrangement | inline protected pure virtual