Package | Description |
---|---|
de.jstacs.data |
Provides classes for the representation of data.
The base classes to represent data are Alphabet and AlphabetContainer for representing alphabets,
Sequence and its sub-classes to represent continuous and discrete sequences, and
DataSet to represent data sets comprising a set of sequences. |
Modifier and Type | Method and Description |
---|---|
static DinucleotideProperty[] |
DinucleotideProperty.filterProperties(String nucleicAcid,
Boolean doubleStrand,
DinucleotideProperty.HowCreated howCreated,
DinucleotideProperty.Type type,
String dimension)
Filters all
DinucleotideProperty s by some of their annotations. |
static DinucleotideProperty |
DinucleotideProperty.valueOf(String name)
Returns the enum constant of this type with the specified name.
|
static DinucleotideProperty[] |
DinucleotideProperty.values()
Returns an array containing the constants of this enum type, in
the order they are declared.
|
Modifier and Type | Method and Description |
---|---|
static DataSet |
DinucleotideProperty.getDataSetForProperty(DataSet original,
DinucleotideProperty... properties)
Creates a new
DataSet by converting each Sequence in original to the DinucleotideProperty s properties and setting these as ReferenceSequenceAnnotation of each original sequence. |
static DataSet |
DinucleotideProperty.getDataSetForProperty(DataSet original,
DinucleotideProperty.Smoothing smoothing,
boolean addToAnnotation,
DinucleotideProperty... properties)
Creates a new
DataSet by converting each Sequence in original to the DinucleotideProperty s properties and adding or setting these as ReferenceSequenceAnnotation of each original sequence. |
static DataSet |
DinucleotideProperty.getDataSetForProperty(DataSet original,
DinucleotideProperty.Smoothing smoothing,
boolean originalAsAnnotation,
DinucleotideProperty property)
Creates a new
DataSet by converting each Sequence in original to the DinucleotideProperty property using the DinucleotideProperty.Smoothing smoothing. |
static DataSet |
DinucleotideProperty.getDataSetForProperty(DataSet original,
DinucleotideProperty property)
|
static ImageResult |
DinucleotideProperty.getPropertyImage(DataSet original,
DinucleotideProperty prop,
DinucleotideProperty.Smoothing smoothing,
REnvironment re,
int xLeft,
String pltOptions,
int width,
int height) |
static ImageResult |
DinucleotideProperty.getPropertyImage(Sequence original,
DinucleotideProperty prop,
DinucleotideProperty.Smoothing smoothing,
REnvironment re,
int xLeft,
String pltOptions,
int width,
int height) |