Package picard.fingerprint
Enum DiploidGenotype
- java.lang.Object
-
- java.lang.Enum<DiploidGenotype>
-
- picard.fingerprint.DiploidGenotype
-
- All Implemented Interfaces:
Serializable
,Comparable<DiploidGenotype>
public enum DiploidGenotype extends Enum<DiploidGenotype>
A genotype produced by one of the concrete implementations of AbstractAlleleCaller. DO NOT ADD TO OR REORDER THIS ENUM AS THAT WOULD BREAK THE GELI FILE FORMAT.
-
-
Method Summary
All Methods Static Methods Instance Methods Concrete Methods Modifier and Type Method Description static DiploidGenotype
fromBases(byte[] bases)
Converts a pair of bases into a DiploidGenotype regardless of base order or casestatic DiploidGenotype
fromBases(byte base1, byte base2)
Converts a pair of bases into a DiploidGenotype regardless of base order or casebyte
getAllele1()
byte
getAllele2()
boolean
isHeterozygous()
boolean
isHomomozygous()
static boolean
isValidBase(byte base)
static DiploidGenotype
valueOf(String name)
Returns the enum constant of this type with the specified name.static DiploidGenotype[]
values()
Returns an array containing the constants of this enum type, in the order they are declared.
-
-
-
Enum Constant Detail
-
AA
public static final DiploidGenotype AA
-
AC
public static final DiploidGenotype AC
-
AG
public static final DiploidGenotype AG
-
AT
public static final DiploidGenotype AT
-
CC
public static final DiploidGenotype CC
-
CG
public static final DiploidGenotype CG
-
CT
public static final DiploidGenotype CT
-
GG
public static final DiploidGenotype GG
-
GT
public static final DiploidGenotype GT
-
TT
public static final DiploidGenotype TT
-
-
Method Detail
-
values
public static DiploidGenotype[] 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 (DiploidGenotype c : DiploidGenotype.values()) System.out.println(c);
- Returns:
- an array containing the constants of this enum type, in the order they are declared
-
valueOf
public static DiploidGenotype 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 nameNullPointerException
- if the argument is null
-
fromBases
public static DiploidGenotype fromBases(byte[] bases)
Converts a pair of bases into a DiploidGenotype regardless of base order or case
-
fromBases
public static DiploidGenotype fromBases(byte base1, byte base2)
Converts a pair of bases into a DiploidGenotype regardless of base order or case
-
isValidBase
public static boolean isValidBase(byte base)
- Returns:
- true if this is a valid base, i.e. one of [ACGTacgt]
-
getAllele1
public byte getAllele1()
-
getAllele2
public byte getAllele2()
-
isHeterozygous
public boolean isHeterozygous()
-
isHomomozygous
public boolean isHomomozygous()
-
-