AbstractStructureAlignment
, BioJavaStructureAlignment
, CeCPMain
, CeMain
, CeSideChainMain
, FatCatFlexible
, FatCatRigid
, OptimalCECPMain
, SmithWaterman3Daligner
public interface StructureAlignment
Modifier and Type | Method | Description |
---|---|---|
AFPChain |
align(Atom[] ca1,
Atom[] ca2) |
Run an alignment while specifying the atoms to be aligned.
|
AFPChain |
align(Atom[] ca1,
Atom[] ca2,
java.lang.Object params) |
run an alignment and also send a bean containing the parameters.
|
java.lang.String |
getAlgorithmName() |
Get the name of the Algorithm
|
ConfigStrucAligParams |
getParameters() |
Return the paramers for this algorithm.
|
java.lang.String |
getVersion() |
Get the Version information for this Algorithm.
|
void |
setParameters(ConfigStrucAligParams parameters) |
Set the default parameters for this algorithm to use
|
AFPChain align(Atom[] ca1, Atom[] ca2) throws StructureException
ca1
- ca2
- StructureException
AFPChain align(Atom[] ca1, Atom[] ca2, java.lang.Object params) throws StructureException
ca1
- ca2
- params
- StructureException
ConfigStrucAligParams getParameters()
void setParameters(ConfigStrucAligParams parameters)
parameters
- java.lang.String getAlgorithmName()
java.lang.String getVersion()