Package | Description |
---|---|
de.citec.tcs.alignment |
This module defines the interface for AlignmentAlgorithms as
well as some helper classes.
|
de.citec.tcs.alignment.adp |
This package contains a more general approach to construct
AlignmentAlgorithms by relying on the theoretical concept of Algebraic
Dynamic Programming (ADP) as developed by Giegerich et al.
|
de.citec.tcs.alignment.comparators |
This module defines the interfaces for comparators in the TCS
Alignment Toolbox.
|
de.citec.tcs.alignment.wrappers |
This module contains some wrappers to make usage of the
TCSAlignmentToolbox easier.
|
Class and Description |
---|
Comparator
This defines a function that returns a (normalized) dissimilarity between
values of a certain value space.
|
DerivableComparator
This is an interface for comparators that have derivable parameters.
|
OperationType
This defines the possible types of operations that may be used in an
alignment within this Toolbox.
|
Class and Description |
---|
DerivableComparator
This is an interface for comparators that have derivable parameters.
|
OperationType
This defines the possible types of operations that may be used in an
alignment within this Toolbox.
|
Class and Description |
---|
Comparator
This defines a function that returns a (normalized) dissimilarity between
values of a certain value space.
|
ComparisonBasedSkipExtendedComparator
This is an abstract class allowing to define a dynamic method to
extend a simple Comparator to a SkipComparator.
|
DerivableComparator
This is an interface for comparators that have derivable parameters.
|
GapComparator
This specifies the comparator interface slightly to include the case that
entities might be deleted/inserted.
|
NCDComparator.CompressorType
This class contains all possible CompressorTypes for this NCD
implementation.
|
Normalizer
A Normalizer specifies a function to normalize arbitrary distance values
between 0 and infinity to the realm of 0 to 1.
|
OperationType
This defines the possible types of operations that may be used in an
alignment within this Toolbox.
|
ReplacementCosts
This is a matrix of parameters specifying costs to replace one symbol of an
alphabet with another one.
|
SkipComparator
This further specifies the AlignmentComparator to include skips.
|
SkipExtendedComparator
This is an abstract class to be used for Comparators that are only
to be used for comparisons per se but can be extended for use with
gaps and skips.
|
SparseDerivableComparator
Some derivable comparators have the special property that in each alignment
step only a small subset of parameters is needed.
|
SparseLocalDerivative
This is an interface for classes that are able to hold sparse representations
of a local derivative, where only for one or a few parameters the derivative
is non-zero.
|
SparseLocalDerivative.SparseDeriativeEntry |
Class and Description |
---|
GapComparator
This specifies the comparator interface slightly to include the case that
entities might be deleted/inserted.
|
Copyright (C) 2013-2015 Benjamin Paaßen, Georg Zentgraf, AG Theoretical Computer Science, Centre of Excellence Cognitive Interaction Technology (CITEC), University of Bielefeld, licensed under the AGPL v. 3: http://openresearch.cit-ec.de/projects/tcs