charite.christo.protein
Interface SequenceAlignerTakesProfile

All Superinterfaces:

SequenceAligner

All Known Implementing Classes:

MultipleAlignerClustalW, MultipleAlignerT_Coffee

public interface SequenceAlignerTakesProfile
extends SequenceAligner

Field Summary

Fields inherited from interface charite.christo.protein.SequenceAligner

OPTION_CHECK_PERFECT_MATCH, OPTION_NOT_TO_SECURITY_LIST, OPTION_USE_SECONDARY_STRUCTURE, PROPERTY_LOCAL_ALIGNMENT, PROPERTY_ONLY_TWO_SEQUENCES, SCORE_FOR_PERFECT_MATCH

Method Summary

void	addProfile(byte[][] ss)
int	getMaxNumberOfProfiles()

Methods inherited from interface charite.christo.protein.SequenceAligner

compute, getAlignedSequences, getOptions, getPropertyFlags, getSequences, setOptions, setSequences

Method Detail

addProfile

void addProfile(byte[][] ss)

getMaxNumberOfProfiles

int getMaxNumberOfProfiles()