org.biojava.bio.structure.align.fatcat.calc
Class FCAlignHelper
java.lang.Object
org.biojava.bio.structure.align.fatcat.calc.FCAlignHelper
public class FCAlignHelper
- extends Object
Constructor Summary |
FCAlignHelper(double[][] sij0,
int M0,
int N0,
double g0,
double h0)
do an alignment given the provided matrix sij0 |
Method Summary |
int |
getAlignPos(int[][] alignList)
record the aligned pairs in alignList[][0], alignList[][1];
return the number of aligned pairs |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
FCAlignHelper
public FCAlignHelper(double[][] sij0,
int M0,
int N0,
double g0,
double h0)
- do an alignment given the provided matrix sij0
- Parameters:
sij0
- - the matrix to perform the calculations on.M0
- N0
- g0
- h0
-
getAlignPos
public int getAlignPos(int[][] alignList)
- record the aligned pairs in alignList[][0], alignList[][1];
return the number of aligned pairs
- Parameters:
alignList
-
- Returns:
- the number of aligned pairs