Uses of Package
org.biojava3.core.sequence.transcription

Packages that use org.biojava3.core.sequence.transcription

org.biojava3.core.sequence
org.biojava3.core.sequence.io
org.biojava3.core.sequence.transcription

Classes in org.biojava3.core.sequence.transcription used by org.biojava3.core.sequence

Frame
Indicates a way of translating a sequence.

TranscriptionEngine
Used as a way of encapsulating the data structures required to parse DNA to a Protein sequence.

Classes in org.biojava3.core.sequence.transcription used by org.biojava3.core.sequence.io

Table
Provides a way of separating us from the specific IUPACTable even though this is the only implementing class for the interface.

Table.Codon
Instance of a Codon which is 3 NucleotideCompounds, its corresponding AminoAcidCompound and if it is a start or stop codon.

Classes in org.biojava3.core.sequence.transcription used by org.biojava3.core.sequence.transcription

DNAToRNATranslator
Performs the first stage of transcription by going from DNA to RNA.

Frame
Indicates a way of translating a sequence.

RNAToAminoAcidTranslator
Takes a Sequence of NucleotideCompound which should represent an RNA sequence (RNASequence is good for this) and returns a list of Sequence which hold AminoAcidCompound.

Table
Provides a way of separating us from the specific IUPACTable even though this is the only implementing class for the interface.

Table.CaseInsensitiveTriplet
Class used to hold three nucleotides together and allow for equality to be assessed in a case insensitive manner.

Table.Codon
Instance of a Codon which is 3 NucleotideCompounds, its corresponding AminoAcidCompound and if it is a start or stop codon.

TranscriptionEngine
Used as a way of encapsulating the data structures required to parse DNA to a Protein sequence.

TranscriptionEngine.Builder
This class is the way to create a TranslationEngine.