AlignmentParams Member List

This is the complete list of members for AlignmentParams, including all inherited members.

addSequence(Sequence *sequence)	AlignmentParams
alignmentMethod	AlignmentParams	[private]
AlignmentParams()	AlignmentParams
gapExtension	AlignmentParams	[private]
gapOpen	AlignmentParams	[private]
getAlignmentMethod() const	AlignmentParams
getGapExtension() const	AlignmentParams
getGapOpen() const	AlignmentParams
getMatch() const	AlignmentParams
getMismatch() const	AlignmentParams
getPenaltySystem() const	AlignmentParams
getScoreSystem() const	AlignmentParams
getSequence(int id)	AlignmentParams
getSequences()	AlignmentParams
getSequencesCount() const	AlignmentParams
match	AlignmentParams	[private]
mismatch	AlignmentParams	[private]
penaltySystem	AlignmentParams	[private]
printParams(FILE *file)	AlignmentParams
scoreSystem	AlignmentParams	[private]
sequences	AlignmentParams	[private]
setAffineGapPenalties(int gapOpen, int gapExtension)	AlignmentParams
setAlignmentMethod(int alignmentMethod)	AlignmentParams
setMatchMismatchScores(int match, int mismatch)	AlignmentParams
setPenaltySystem(int penaltySystem)	AlignmentParams
setScoreSystem(int scoreSystem)	AlignmentParams
swapSequences()	AlignmentParams
~AlignmentParams()	AlignmentParams	[virtual]