Package de.charite.compbio.jannovar.hgvs

Enum VariantConfiguration

java.lang.Object

java.lang.Enum<VariantConfiguration>

de.charite.compbio.jannovar.hgvs.VariantConfiguration

All Implemented Interfaces:

Serializable, Comparable<VariantConfiguration>

public enum VariantConfiguration
extends Enum<VariantConfiguration>

Variant configuration of changes in the same gene.

Author:

Manuel Holtgrewe

Enum Constant Summary

Enum Constants

Enum Constant	Description
CHIMERIC	chimeric change
IN_CIS	change resulting from independent changes on the same chromosome
MOSAIC	mosaic change
SINGLE_ORIGIN	change resulting from one nucleotide change
UNKNOWN_CIS_TRANS	it is unknown whether the protein change is on the same or different alleles

Method Summary

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

Methods inherited from class java.lang.Enum

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

Methods inherited from class java.lang.Object

getClass, notify, notifyAll, wait, wait, wait

Enum Constant Detail

SINGLE_ORIGIN

public static final VariantConfiguration SINGLE_ORIGIN

change resulting from one nucleotide change

IN_CIS

public static final VariantConfiguration IN_CIS

change resulting from independent changes on the same chromosome

UNKNOWN_CIS_TRANS

public static final VariantConfiguration UNKNOWN_CIS_TRANS

it is unknown whether the protein change is on the same or different alleles

MOSAIC

public static final VariantConfiguration MOSAIC

mosaic change

CHIMERIC

public static final VariantConfiguration CHIMERIC

chimeric change

Method Detail

values

public static VariantConfiguration[] 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 (VariantConfiguration c : VariantConfiguration.values())
    System.out.println(c);

Returns:

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

valueOf

public static VariantConfiguration 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

fromString

public static VariantConfiguration fromString(String s)

Returns:

VariantConfiguration matching to s

toHGVSSeparator

public String toHGVSSeparator()

Returns:

separator to use in HGVS strings