Package picard.util
Enum Class IlluminaUtil.IlluminaAdapterPair
- All Implemented Interfaces:
Serializable
,Comparable<IlluminaUtil.IlluminaAdapterPair>
,Constable
,AdapterPair
- Enclosing class:
IlluminaUtil
public static enum IlluminaUtil.IlluminaAdapterPair
extends Enum<IlluminaUtil.IlluminaAdapterPair>
implements AdapterPair
Describes adapters used on each pair of strands
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Nested Class Summary
Nested classes/interfaces inherited from class java.lang.Enum
Enum.EnumDesc<E extends Enum<E>>
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Enum Constant Summary
Enum ConstantsEnum ConstantDescriptionThe following sequences can be found in https://support.illumina.com/content/dam/illumina-support/documents/documentation/chemistry_documentation/experiment-design/illumina-adapter-sequences_1000000002694-01.pdf and are protected by the following copyright notice: Oligonucleotide sequences (c) 2016 Illumina, Inc. -
Method Summary
Modifier and TypeMethodDescriptionbyte[]
byte[]
byte[]
byte[]
getName()
Returns the enum constant of this class with the specified name.static IlluminaUtil.IlluminaAdapterPair[]
values()
Returns an array containing the constants of this enum class, in the order they are declared.
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Enum Constant Details
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PAIRED_END
The following sequences can be found in https://support.illumina.com/content/dam/illumina-support/documents/documentation/chemistry_documentation/experiment-design/illumina-adapter-sequences_1000000002694-01.pdf and are protected by the following copyright notice: Oligonucleotide sequences (c) 2016 Illumina, Inc. All rights reserved. Derivative works created by Illumina customers are authorized for use with Illumina instruments and products only. All other uses are strictly prohibited. -
INDEXED
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SINGLE_END
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NEXTERA_V1
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NEXTERA_V2
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DUAL_INDEXED
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FLUIDIGM
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TRUSEQ_SMALLRNA
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ALTERNATIVE_SINGLE_END
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Method Details
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values
Returns an array containing the constants of this enum class, in the order they are declared.- Returns:
- an array containing the constants of this enum class, in the order they are declared
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valueOf
Returns the enum constant of this class with the specified name. The string must match exactly an identifier used to declare an enum constant in this class. (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 class has no constant with the specified nameNullPointerException
- if the argument is null
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get3PrimeAdapter
- Specified by:
get3PrimeAdapter
in interfaceAdapterPair
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get5PrimeAdapter
- Specified by:
get5PrimeAdapter
in interfaceAdapterPair
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get3PrimeAdapterInReadOrder
- Specified by:
get3PrimeAdapterInReadOrder
in interfaceAdapterPair
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get5PrimeAdapterInReadOrder
- Specified by:
get5PrimeAdapterInReadOrder
in interfaceAdapterPair
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get3PrimeAdapterBytes
public byte[] get3PrimeAdapterBytes()- Specified by:
get3PrimeAdapterBytes
in interfaceAdapterPair
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get5PrimeAdapterBytes
public byte[] get5PrimeAdapterBytes()- Specified by:
get5PrimeAdapterBytes
in interfaceAdapterPair
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get3PrimeAdapterBytesInReadOrder
public byte[] get3PrimeAdapterBytesInReadOrder()- Specified by:
get3PrimeAdapterBytesInReadOrder
in interfaceAdapterPair
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get5PrimeAdapterBytesInReadOrder
public byte[] get5PrimeAdapterBytesInReadOrder()- Specified by:
get5PrimeAdapterBytesInReadOrder
in interfaceAdapterPair
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getName
- Specified by:
getName
in interfaceAdapterPair
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