Uses of Package
jebl.evolution.sequences

Packages that use jebl.evolution.sequences

Package	Description
jebl.evolution.align	Provides classes and interfaces for pairwise alignment of two sequences.
jebl.evolution.aligners
jebl.evolution.alignments
jebl.evolution.io
jebl.evolution.parsimony
jebl.evolution.sequences
jebl.evolution.substmodel

Classes in jebl.evolution.sequences used by jebl.evolution.align

Class and Description
Sequence A biomolecular sequence.

Classes in jebl.evolution.sequences used by jebl.evolution.aligners

Class and Description
Sequence A biomolecular sequence.

Classes in jebl.evolution.sequences used by jebl.evolution.alignments

Class and Description
Sequence A biomolecular sequence.
Sequences A set of sequence objects.
SequenceType Interface for sequences data types.
State

Classes in jebl.evolution.sequences used by jebl.evolution.io

Class and Description
Sequence A biomolecular sequence.
SequenceType Interface for sequences data types.

Classes in jebl.evolution.sequences used by jebl.evolution.parsimony

Class and Description
State

Classes in jebl.evolution.sequences used by jebl.evolution.sequences

Class and Description
AminoAcidState
CodonState As of 2007-07-30, instances of this class are only constructed for non-ambigous nucleotide triplets - see Codons.
FilteredSequence
GeneticCode A set of standard genetic codes.
NucleotideState
Sequence A biomolecular sequence.
SequenceType Interface for sequences data types.
State
StateClassification

Classes in jebl.evolution.sequences used by jebl.evolution.substmodel

Class and Description
SequenceType Interface for sequences data types.