Uses of Class
jebl.evolution.sequences.GeneticCode

Packages that use GeneticCode
jebl.evolution.sequences   
 

Uses of GeneticCode in jebl.evolution.sequences
 

Fields in jebl.evolution.sequences declared as GeneticCode
static GeneticCode GeneticCode.ALT_YEAST
           
static GeneticCode GeneticCode.ASCIDIAN_MT
           
static GeneticCode GeneticCode.BACTERIAL
           
static GeneticCode GeneticCode.BLEPHARISMA_NUC
           
static GeneticCode GeneticCode.CILIATE
           
static GeneticCode GeneticCode.ECHINODERM_MT
           
static GeneticCode GeneticCode.EUPLOTID_NUC
           
static GeneticCode GeneticCode.FLATWORM_MT
           
static GeneticCode[] GeneticCode.GENETIC_CODES
          Deprecated. use getGeneticCodes() instead
static GeneticCode GeneticCode.INVERTEBRATE_MT
           
static GeneticCode GeneticCode.MOLD_PROTOZOAN_MT
           
static GeneticCode GeneticCode.MYCOPLASMA
           
static GeneticCode GeneticCode.UNIVERSAL
           
static GeneticCode GeneticCode.VERTEBRATE_MT
           
static GeneticCode GeneticCode.YEAST
           
 

Methods in jebl.evolution.sequences that return GeneticCode
static GeneticCode[] GeneticCode.getGeneticCodesArray()
           
static GeneticCode GeneticCode.valueOf(int NCBITranslationTableNumber)
           
static GeneticCode GeneticCode.valueOf(java.lang.String name)
           
 

Methods in jebl.evolution.sequences that return types with arguments of type GeneticCode
static java.lang.Iterable<GeneticCode> GeneticCode.getGeneticCodes()
          Returns an iterable that allows you to iterate over all the standard genetic codes
 

Methods in jebl.evolution.sequences with parameters of type GeneticCode
static Sequence Utils.translate(Sequence sequence, GeneticCode geneticCode)
          Translates a given Sequence to a corresponding Sequence under the given genetic code.
static AminoAcidState[] Utils.translate(State[] states, GeneticCode geneticCode)
          Translates each of a given sequence of NucleotideStates or CodonStates to the AminoAcidState corresponding to it under the given genetic code.
static java.lang.String Utils.translate(java.lang.String nucleotideSequence, GeneticCode geneticCode)
          A wrapper for Utils.translateCharSequence(CharSequence,GeneticCode) that takes a nucleotide sequence as a String only rather than a CharSequence.
static java.lang.String Utils.translateCharSequence(java.lang.CharSequence nucleotideSequence, GeneticCode geneticCode)
          Translates the given nucleotideSequence into an amino acid sequence string, using the given geneticCode.
 

Constructors in jebl.evolution.sequences with parameters of type GeneticCode
TranslatedSequence(Sequence source, GeneticCode geneticCode)
           
 



http://code.google.com/p/jebl2/