Uses of Class
org.biojava.bio.structure.align.helper.JointFragments

Packages that use JointFragments

org.biojava.bio.structure.align.pairwise

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

Methods in org.biojava.bio.structure.align.pairwise that return JointFragments

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.

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

void	AlternativeAlignment.apairs_from_idxlst(JointFragments jf) Set apairs according to a list of (i,j) tuples.
static double	FragmentJoiner.getRMS(Atom[] ca1, Atom[] ca2, JointFragments frag)