| Interface | Description |
|---|---|
| Sequence |
A biomolecular sequence.
|
| Sequences |
A set of sequence objects.
|
| SequenceType |
Interface for sequences data types.
|
| StateClassification |
| Class | Description |
|---|---|
| AminoAcids |
Uninstantiable utility class with only static methods.
|
| AminoAcidState | |
| BasicSequence |
A default implementation of the Sequence interface.
|
| CanonicalSequence |
A default implementation of the Sequence interface
that converts sequence characters to
States such that calling getString() will always return
uppercase residues with nucleotide U residues converted to T
|
| Codons | |
| CodonSequence |
A codon implementation of the Sequence interface.
|
| CodonState |
As of 2007-07-30, instances of this class are only constructed for non-ambigous
nucleotide triplets - see
Codons. |
| FilteredSequence | |
| GaplessSequence | |
| GeneticCode |
A set of standard genetic codes.
|
| Nucleotides |
Uninstantiable utility class with only static methods.
|
| NucleotideState | |
| SequenceTester | |
| SequenceType.Utils | |
| State | |
| StateClassification.Default | |
| TranslatedSequence | |
| Utils |
| Exception | Description |
|---|---|
| SequenceStateException |
http://code.google.com/p/jebl2/