Uses of Class
org.biojava.utils.Unchangeable
Packages that use Unchangeable
Package
Description
Probability distributions over Alphabets.
HMM and Dynamic Programming Algorithms.
Classes and interfaces for defining biological sequences and informatics
objects.
Client for the OBDA BioFetch protocol.
Support for OBDA flatfile databases.
The classes and interfaces for defining sequence similarity and
honology.
Standard in-memory implementations of
Sequence
and
Feature
.Classes and interfaces for processing and producing flat-file representations
of sequences.
Representation of the Symbols that make up a sequence, and locations within
them.
A general-purpose API for ontologies.
The Biojava extensions packages, classes that extend the core biojava
functionality
Rich implementations of Sequences, Locations and Features.
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Uses of Unchangeable in org.biojava.bio.dist
Subclasses of Unchangeable in org.biojava.bio.dist -
Uses of Unchangeable in org.biojava.bio.dp
Subclasses of Unchangeable in org.biojava.bio.dp -
Uses of Unchangeable in org.biojava.bio.seq
Subclasses of Unchangeable in org.biojava.bio.seqModifier and TypeClassDescriptionclass
A circular view onto another Sequence object.static final class
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Uses of Unchangeable in org.biojava.bio.seq.db.biofetch
Subclasses of Unchangeable in org.biojava.bio.seq.db.biofetchModifier and TypeClassDescriptionclass
Simple SequenceDB implementation backed by a BioFetch (HTTP) server. -
Uses of Unchangeable in org.biojava.bio.seq.db.flat
Subclasses of Unchangeable in org.biojava.bio.seq.db.flatModifier and TypeClassDescriptionclass
FlatSequenceDB
is an OBDA flatfile sequence databank implementation. -
Uses of Unchangeable in org.biojava.bio.seq.homol
Subclasses of Unchangeable in org.biojava.bio.seq.homolModifier and TypeClassDescriptionstatic final class
EmptyPairwiseAlignment
empty pairwise alignment which has labels to empty symbol lists. -
Uses of Unchangeable in org.biojava.bio.seq.impl
Subclasses of Unchangeable in org.biojava.bio.seq.impl -
Uses of Unchangeable in org.biojava.bio.seq.io
Subclasses of Unchangeable in org.biojava.bio.seq.ioModifier and TypeClassDescriptionclass
Implementation of SymbolTokenization which binds symbols to strings of characters.class
Implementation of SymbolTokenization which binds symbols to single unicode characters.class
Tokenization for cross-product alphabets.class
class
class
Simple implementation of SymbolTokenization which uses the `name' field of the symbols.class
class
Base class for tokenizations which accept whitespace-separated `words'. -
Uses of Unchangeable in org.biojava.bio.symbol
Subclasses of Unchangeable in org.biojava.bio.symbolModifier and TypeClassDescriptionfinal class
An efficient implementation of an Alphabet over the infinite set of double values.static class
A range of double values.static class
A single double value.static class
A class to represent a contiguous range of double symbols.final class
An efficient implementation of an Alphabet over the infinite set of integer values.static class
A single int value.class
An alignment that relabels another alignment.final class
Soft masking is usually displayed by making the masked regions somehow different from the non masked regions.class
ThisSymbolTokenizer
works with a delegate to softmask symbol tokenization as appropriate. -
Uses of Unchangeable in org.biojava.ontology
Subclasses of Unchangeable in org.biojava.ontologyModifier and TypeClassDescriptionclass
final class
static final class
Basic in-memory implementation of a Triple in an ontology This can be used to implement Ontology.createTriple -
Uses of Unchangeable in org.biojavax
Subclasses of Unchangeable in org.biojavaxModifier and TypeClassDescriptionclass
A place holder for a RichAnnotation that prevents null having to be usedclass
A basic CrossRef implementation.class
Represents an author of a documentary reference. -
Uses of Unchangeable in org.biojavax.bio.seq
Subclasses of Unchangeable in org.biojavax.bio.seqModifier and TypeClassDescriptionclass
An Empty implementation of RichLocation.