Package | Description |
---|---|
de.jstacs.data.sequences |
Provides classes for representing sequences.
The implementations of sequences currently include DiscreteSequence s prepared for alphabets of different sizes, and ArbitrarySequence s that may
contain continuous values as well.As sub-package provides the facilities to annotate Sequence s. |
de.jstacs.sequenceScores.statisticalModels.differentiable |
Provides all
DifferentiableStatisticalModel s, which can compute the gradient with
respect to their parameters for a given input Sequence . |
Modifier and Type | Field and Description |
---|---|
protected DiscreteAlphabetMapping[] |
MappedDiscreteSequence.transformation
The
DiscreteAlphabetMapping s used for mapping the original Sequence . |
Modifier and Type | Method and Description |
---|---|
static AlphabetContainer |
MappedDiscreteSequence.getNewAlphabetContainer(AlphabetContainer original,
DiscreteAlphabetMapping... transformation)
This method allows to create a new
AlphabetContainer given an old AlphabetContainer and some DiscreteAlphabetMapping s. |
Constructor and Description |
---|
MappedDiscreteSequence(AlphabetContainer originalAlphabetContainer,
SequenceAnnotation[] seqAn,
DiscreteAlphabetMapping... transformation)
This method allows to create an empty
MappedDiscreteSequence . |
MappedDiscreteSequence(SimpleDiscreteSequence original,
DiscreteAlphabetMapping... transformation)
This method allows to create a
MappedDiscreteSequence from a given Sequence and some given DiscreteAlphabetMapping s. |
Constructor and Description |
---|
MappingDiffSM(AlphabetContainer originalAlphabetContainer,
DifferentiableStatisticalModel nsf,
DiscreteAlphabetMapping... mapping)
The main constructor creating a
MappingDiffSM . |