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Packages that use Residue | |
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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 |
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Subclasses of Residue in org.strbio.mol | |
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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 | |
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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 | |
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ProfRes(Residue q)
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Residue(Residue q)
copy another residue, including the atoms. |
Uses of Residue in org.strbio.mol.lib |
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Methods in org.strbio.mol.lib with parameters of type Residue | |
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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)
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double |
ScorePred2ary.score(Residue a,
Residue b)
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double |
ScorePairwiseDistance.score(Residue a,
Residue b)
Score is the distance between the residues' CA atoms. |
double |
ScoreJDB10.score(Residue a,
Residue b)
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double |
ScoreFischer.score(Residue a,
Residue b)
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double |
ScoreDefay.score(Residue a,
Residue b)
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double |
ScoreBlosum62.score(Residue a,
Residue b)
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double |
Score2ary.score(Residue a,
Residue b)
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Uses of Residue in org.strbio.mol.lib.pred2ary |
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Subclasses of Residue in org.strbio.mol.lib.pred2ary | |
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class |
PCPRes
ProfRes with a couple extras useful for 2ary structure prediction. |
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