org.biojava.bio.symbol
Interface WobbleDistribution


public interface WobbleDistribution

an object to return statistics about the frequency of the wobble base in a set of synonymous codons.

Since:
1.3
Author:
David Huen

Method Summary
 Distribution getFrequencyOfNonWobbleBases()
          returns the frequency with which synonymous codons start with a specified pair of bases.
 Set getNonWobbleBases()
          returns Set containing the nonWobbleBases that occur in codons that encode this residue
 Symbol getResidue()
          returns the residue encoded by this WobbleDistribution
 Distribution getWobbleFrequency(Symbol nonWobbleBases)
          returns the frequency of a specific wobble base in a set of synonymous codons that start with the same two bases.
 

Method Detail

getResidue

Symbol getResidue()
returns the residue encoded by this WobbleDistribution


getNonWobbleBases

Set getNonWobbleBases()
returns Set containing the nonWobbleBases that occur in codons that encode this residue


getFrequencyOfNonWobbleBases

Distribution getFrequencyOfNonWobbleBases()
returns the frequency with which synonymous codons start with a specified pair of bases.


getWobbleFrequency

Distribution getWobbleFrequency(Symbol nonWobbleBases)
returns the frequency of a specific wobble base in a set of synonymous codons that start with the same two bases. (sums to one over this set).