Uses of Class
org.biojava.nbio.alignment.Alignments.ProfileProfileAlignerType
-
Packages that use Alignments.ProfileProfileAlignerType Package Description org.biojava.nbio.alignment org.biojava.nbio.alignment.template -
-
Uses of Alignments.ProfileProfileAlignerType in org.biojava.nbio.alignment
Methods in org.biojava.nbio.alignment that return Alignments.ProfileProfileAlignerType Modifier and Type Method Description Alignments.ProfileProfileAlignerTypeStandardRescoreRefiner. getProfileProfileAligner()static Alignments.ProfileProfileAlignerTypeAlignments.ProfileProfileAlignerType. valueOf(String name)Returns the enum constant of this type with the specified name.static Alignments.ProfileProfileAlignerType[]Alignments.ProfileProfileAlignerType. values()Returns an array containing the constants of this enum type, in the order they are declared.Methods in org.biojava.nbio.alignment with parameters of type Alignments.ProfileProfileAlignerType Modifier and Type Method Description static <S extends Sequence<C>,C extends Compound>
Profile<S,C>Alignments. getProgressiveAlignment(GuideTree<S,C> tree, Alignments.ProfileProfileAlignerType type, GapPenalty gapPenalty, SubstitutionMatrix<C> subMatrix)Factory method to run the profile-profile alignments of a progressive multiple sequence alignment concurrently.Constructors in org.biojava.nbio.alignment with parameters of type Alignments.ProfileProfileAlignerType Constructor Description StandardRescoreRefiner(Alignments.PairInProfileScorerType pips, Alignments.ProfileProfileAlignerType ppa) -
Uses of Alignments.ProfileProfileAlignerType in org.biojava.nbio.alignment.template
Methods in org.biojava.nbio.alignment.template that return Alignments.ProfileProfileAlignerType Modifier and Type Method Description Alignments.ProfileProfileAlignerTypePartitionRefiner. getProfileProfileAligner()Returns class type of profile-profile alignment subroutine.Alignments.ProfileProfileAlignerTypeRescoreRefiner. getProfileProfileAligner()Returns class type of profile-profile alignment subroutine.
-