org.biojava.bio.structure.align.fatcat
public class FatCat extends java.lang.Object
Modifier and Type | Field and Description |
---|---|
static java.lang.String |
newline |
static float |
VERSION |
Constructor and Description |
---|
FatCat() |
Modifier and Type | Method and Description |
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protected AFPChain |
align(Atom[] ca1,
Atom[] ca2,
FatCatParameters params,
boolean doRigid) |
AFPChain |
alignFlexible(Atom[] ca1,
Atom[] ca2,
FatCatParameters params) |
AFPChain |
alignRigid(Atom[] ca1,
Atom[] ca2) |
AFPChain |
alignRigid(Atom[] ca1,
Atom[] ca2,
FatCatParameters params) |
FatCatAligner |
getFatCatAligner() |
static void |
main(java.lang.String[] argv)
See demo/FatCatDemo.java for an example how to run.
|
java.lang.String |
printHelp()
print the -h help text.
|
java.lang.String |
toString() |
public static final float VERSION
public static java.lang.String newline
public static void main(java.lang.String[] argv)
argv
- public java.lang.String toString()
toString
in class java.lang.Object
public java.lang.String printHelp()
public AFPChain alignRigid(Atom[] ca1, Atom[] ca2) throws StructureException
StructureException
public AFPChain alignRigid(Atom[] ca1, Atom[] ca2, FatCatParameters params) throws StructureException
StructureException
public AFPChain alignFlexible(Atom[] ca1, Atom[] ca2, FatCatParameters params) throws StructureException
StructureException
protected AFPChain align(Atom[] ca1, Atom[] ca2, FatCatParameters params, boolean doRigid) throws StructureException
StructureException
public FatCatAligner getFatCatAligner()