Package de.charite.compbio.jannovar.hgvs

Enum SequenceType

java.lang.Object

java.lang.Enum<SequenceType>

de.charite.compbio.jannovar.hgvs.SequenceType

All Implemented Interfaces:

Serializable, Comparable<SequenceType>

public enum SequenceType
extends Enum<SequenceType>

Type of the sequence that the variant is on.

Author:

Manuel Holtgrewe

Enum Constant Summary

Enum Constants

Enum Constant	Description
CODING_DNA	coding DNA "c."
GENOMIC	genomic "g."
MITOCHONDRIAL_DNA	mitochondrial DNA "m."
NON_CODING_DNA	non-coding DNA "n."
PROTEIN	protein "p."
RNA	RNA "r."

Method Summary

Modifier and Type	Method	Description
static SequenceType	findMatchingForPrefix(String prefix)
String	getPrefix()
static SequenceType	valueOf(String name)	Returns the enum constant of this type with the specified name.
static SequenceType[]	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

CODING_DNA

public static final SequenceType CODING_DNA

coding DNA "c."

GENOMIC

public static final SequenceType GENOMIC

genomic "g."

MITOCHONDRIAL_DNA

public static final SequenceType MITOCHONDRIAL_DNA

mitochondrial DNA "m."

NON_CODING_DNA

public static final SequenceType NON_CODING_DNA

non-coding DNA "n."

RNA

public static final SequenceType RNA

RNA "r."

PROTEIN

public static final SequenceType PROTEIN

protein "p."

Method Detail

values

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

Returns:

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

valueOf

public static SequenceType 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

findMatchingForPrefix

public static SequenceType findMatchingForPrefix(String prefix)

Returns:

matching SequenceType value for the given prefix

getPrefix

public String getPrefix()

Returns:

prefix for the sequence variant, e.g., "c." or "g.".