Uses of Class
org.strbio.mol.Residue

Packages that use Residue

org.strbio.mol	These classes represent objects or concepts useful to structural biologists.
org.strbio.mol.lib	These classes represent conceptual objects used in structural biology algorithms.
org.strbio.mol.lib.pred2ary	These classes represent conceptual objects used in the Pred2ary program, which are probably not very useful for other purposes.

Uses of Residue in org.strbio.mol

Subclasses of Residue in org.strbio.mol

class	ProfRes Class to represent a single residue in a protein with profile information.
class	ProfResPSI Class to represent a single residue in a profile, with position specific information (PSI) added.

Methods in org.strbio.mol that return Residue

Residue	Protein.AA(int i) returns the N'th residue in the sequence.
Residue	Protein.firstRes() Return first residue if there is one.

Constructors in org.strbio.mol with parameters of type Residue

ProfRes(Residue q)

Residue(Residue q)
copy another residue, including the atoms.

Uses of Residue in org.strbio.mol.lib

Methods in org.strbio.mol.lib with parameters of type Residue

double	ScoreUFSippl90.score(Residue a, Residue b) Restrict scoring to a range of k values.
double	ScoreSippl90.score(Residue a, Residue b) This is somewhat hard to read; it is written for speed.
double	ScorePredFreq.score(Residue a, Residue b)
double	ScorePred2ary.score(Residue a, Residue b)
double	ScorePairwiseDistance.score(Residue a, Residue b) Score is the distance between the residues' CA atoms.
double	ScoreJDB10.score(Residue a, Residue b)
double	ScoreFischer.score(Residue a, Residue b)
double	ScoreDefay.score(Residue a, Residue b)
double	ScoreBlosum62.score(Residue a, Residue b)
double	Score2ary.score(Residue a, Residue b)

Uses of Residue in org.strbio.mol.lib.pred2ary

Subclasses of Residue in org.strbio.mol.lib.pred2ary

class

PCPRes ProfRes with a couple extras useful for 2ary structure prediction.