Uses of Class
org.biojava.bio.structure.align.pairwise.FragmentPair

Packages that use FragmentPair

org.biojava.bio.structure.align
org.biojava.bio.structure.align.pairwise

Uses of FragmentPair in org.biojava.bio.structure.align

Methods in org.biojava.bio.structure.align that return FragmentPair

FragmentPair[]

StructurePairAligner.getFragmentPairs() get the results of step 1 - the FragmentPairs used for seeding the alignment

Methods in org.biojava.bio.structure.align with parameters of type FragmentPair

void	StructurePairAligner.setFragmentPairs(FragmentPair[] fragPairs)

Uses of FragmentPair in org.biojava.bio.structure.align.pairwise

Methods in org.biojava.bio.structure.align.pairwise with parameters of type FragmentPair

JointFragments[]	FragmentJoiner.approach_ap3(Atom[] ca1, Atom[] ca2, FragmentPair[] fraglst, StrucAligParameters params)
JointFragments[]	FragmentJoiner.frag_pairwise_compat(FragmentPair[] fraglst, int angleDiff, float fragCompatDist, int maxRefine) Calculate the pairwise compatibility of fpairs.
static boolean	FragmentJoiner.reduceFragments(List fragments, FragmentPair f, Matrix rmsmat) In helices often many similar fragments can be found.