public enum PairedEndReadsLayout extends Enum<PairedEndReadsLayout> implements Serializable
| Enum Constant and Description |
|---|
Collinear
R1 R2
---> --->
+
R2 R1
<--- <---
|
CollinearDirect
R1 R2
---> --->
|
DirectOnly
R1 R2
---> <---
|
Opposite
R1 R2
---> <---
+
R2 R1
---> <---
|
ReverseOnly
R2 R1
---> <---
|
Unknown
R1 R2
---> <---
+
R2 R1
---> <---
+
R1 R2
---> --->
+
R2 R1
<--- <---
|
| Modifier and Type | Method and Description |
|---|---|
Target[] |
createTargets(PairedRead read) |
Target[] |
createTargets(SequenceRead read) |
Target[] |
createTargets(SingleRead read) |
boolean[] |
getPossibleRelativeStrands()
Determines possible relative (R1 relative to R2) strands.
|
static PairedEndReadsLayout |
valueOf(String name)
Returns the enum constant of this type with the specified name.
|
static PairedEndReadsLayout[] |
values()
Returns an array containing the constants of this enum type, in
the order they are declared.
|
public static final PairedEndReadsLayout DirectOnly
public static final PairedEndReadsLayout ReverseOnly
public static final PairedEndReadsLayout Opposite
public static final PairedEndReadsLayout Collinear
public static final PairedEndReadsLayout CollinearDirect
public static final PairedEndReadsLayout Unknown
public static PairedEndReadsLayout[] values()
for (PairedEndReadsLayout c : PairedEndReadsLayout.values()) System.out.println(c);
public static PairedEndReadsLayout valueOf(String name)
name - the name of the enum constant to be returned.IllegalArgumentException - if this enum type has no constant with the specified nameNullPointerException - if the argument is nullpublic Target[] createTargets(PairedRead read)
public Target[] createTargets(SingleRead read)
public Target[] createTargets(SequenceRead read)
public boolean[] getPossibleRelativeStrands()
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