Package org.mathIT.genes

Provides classes to simulate biological amino acid sequences and to use the genetic code

See: Description

Class Summary

Class	Description
DNA	This class represents the DNA genome of a living organism.
FastaFileFilter	This class provides a factory method to create a file name extension filter for files in FASTA format.
Genome	This class represents a genome of a living organism.
ORF	This class represents an ORF (open reading frame), i.e., a possible gene (or part of a gene) of a living organism coding a particular protein.
Protein	This class represents a protein as a sequence of amino acids.
Utils	This class provides static utility methods for the gene library package.

Enum Summary

Enum	Description
AminoAcid	This enum represents the 22 natural amino acids forming proteins.
Codon	This enum provides the 43 = 64 DNA codons made of the alphabet T, C, A, G; associated to each cocon is the amino acid to which it is transformed by the genetic code during the process of genetic expression.
RNACodon	This enum provides the 43 = 64 mRNA codons made of the alphabet U, C, A, G; associated to each cocon is the amino acid to which it is transformed by the genetic code during the process of genetic expression.

Package org.mathIT.genes Description

Provides classes to simulate biological amino acid sequences and to use the genetic code.

Requires JDK 7