Uses of Class
org.aisb.bio.tools.MonomerComparator

Packages that use MonomerComparator

org.aisb.bio.tools

Uses of MonomerComparator in org.aisb.bio.tools

Subclasses of MonomerComparator in org.aisb.bio.tools

class	IdentityComparator This trivial comparison function returns "1" if the elements are completely identical, and "0" if they are not.
class	SimilarityMatrixComparator This is a simple implementation of a similarity matrix for comparing monomers.

Methods in org.aisb.bio.tools that return MonomerComparator

MonomerComparator

Needleman.getComparator() Set the comparator to use to match each pair of elements.

Methods in org.aisb.bio.tools with parameters of type MonomerComparator

void	Needleman.setComparator(MonomerComparator comparator) Returns the comparator currently in use.

Constructors in org.aisb.bio.tools with parameters of type MonomerComparator

Needleman(MonomerComparator comparator, int gapCreationPenalty, int gapExtensionPenalty)
This constructor is a little cleaner to use outside of contexts in which the command bean is really useful.