Package | Description |
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org.biolegato.sequence.data |
Modifier and Type | Method and Description |
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static Seq.Type |
Seq.detectType(java.lang.StringBuffer data)
This function detects the type of a sequence (RNA, DNA, or protein).
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static Seq.Type |
Seq.Type.valueOf(java.lang.String name)
Returns the enum constant of this type with the specified name.
|
static Seq.Type[] |
Seq.Type.values()
Returns an array containing the constants of this enum type, in
the order they are declared.
|
Modifier and Type | Method and Description |
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static boolean |
Dataset.isProtectionsOn(Seq.Type type,
boolean protect_align,
boolean protect_ambig,
boolean protect_uambig,
char[] test,
int start,
int end)
Checks a string against all of a sequence's protection settings.
|
Constructor and Description |
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Seq(Seq.Type type,
java.lang.String name,
java.lang.StringBuffer sequence)
Constructs new instances of a sequence object.
|
Seq(Seq.Type type,
java.lang.String name,
java.lang.StringBuffer sequence,
Seq.Direction direction,
Seq.Topology topology,
Seq.Strandedness strandedness)
Constructs new instances of a sequence object.
|
Seq(Seq.Type type,
java.lang.String name,
java.lang.StringBuffer sequence,
Seq.Direction direction,
Seq.Topology topology,
Seq.Strandedness strandedness,
java.lang.CharSequence original)
Constructs new instances of a sequence object.
|
Seq(Seq.Type type,
java.lang.String name,
java.lang.StringBuffer sequence,
Seq.Direction direction,
Seq.Topology topology,
Seq.Strandedness strandedness,
int groupID,
java.lang.String description)
Constructs new instances of a sequence object.
|
Seq(Seq.Type type,
java.lang.String name,
java.lang.StringBuffer sequence,
java.lang.String description)
Constructs new instances of a sequence object.
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