com.milaboratory.core.alignment

Enum BLASTMatrix

java.lang.Object

java.lang.Enum<BLASTMatrix>

com.milaboratory.core.alignment.BLASTMatrix

All Implemented Interfaces:

Serializable, Comparable<BLASTMatrix>

public enum BLASTMatrix
extends Enum<BLASTMatrix>
implements Serializable

BLASTMatrix - enum of available BLAST AminoAcid substitution matrices

Enum Constant Summary

Enum Constants

Enum Constant and Description
BLOSUM45
BLOSUM50
BLOSUM62
BLOSUM80
BLOSUM90
PAM250
PAM30
PAM70

Method Summary

Methods

Modifier and Type	Method and Description
int[]	getMatrix()
static BLASTMatrix	valueOf(String name) Returns the enum constant of this type with the specified name.
static BLASTMatrix[]	values() Returns an array containing the constants of this enum type, in the order they are declared.

Methods inherited from class java.lang.Enum

clone, compareTo, equals, finalize, getDeclaringClass, hashCode, name, ordinal, toString, valueOf

Methods inherited from class java.lang.Object

getClass, notify, notifyAll, wait, wait, wait

Enum Constant Detail

BLOSUM45

public static final BLASTMatrix BLOSUM45

BLOSUM50

public static final BLASTMatrix BLOSUM50

BLOSUM62

public static final BLASTMatrix BLOSUM62

BLOSUM80

public static final BLASTMatrix BLOSUM80

BLOSUM90

public static final BLASTMatrix BLOSUM90

PAM30

public static final BLASTMatrix PAM30

PAM70

public static final BLASTMatrix PAM70

PAM250

public static final BLASTMatrix PAM250

Method Detail

values

public static BLASTMatrix[] values()

Returns an array containing the constants of this enum type, in the order they are declared. This method may be used to iterate over the constants as follows:

for (BLASTMatrix c : BLASTMatrix.values())
    System.out.println(c);

Returns:

an array containing the constants of this enum type, in the order they are declared

valueOf

public static BLASTMatrix valueOf(String name)

Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)

Parameters:

name - the name of the enum constant to be returned.

Returns:

the enum constant with the specified name

Throws:

IllegalArgumentException - if this enum type has no constant with the specified name

NullPointerException - if the argument is null

getMatrix

public int[] getMatrix()