statalign.model.subst.plugins
Class MtMam

java.lang.Object
  extended by statalign.model.subst.SubstitutionModel
      extended by statalign.model.subst.plugins.AminoAcidModel
          extended by statalign.model.subst.plugins.MtMam

public class MtMam
extends AminoAcidModel

Implements the mammalian mitochondrial substitution model, see also http://www.ncbi.nlm.nih.gov/pubmed/9732458

Author:
miklos, novak

Field Summary
static java.lang.String menuName
           
 
Fields inherited from class statalign.model.subst.plugins.AminoAcidModel
type
 
Fields inherited from class statalign.model.subst.SubstitutionModel
alphabet, attachedScoringScheme, d, e, params, v, w
 
Constructor Summary
MtMam()
          Constructor used when instantiation is necessary.
 
Method Summary
 
Methods inherited from class statalign.model.subst.plugins.AminoAcidModel
acceptable, getColor, mostLikely, print, restoreParameter, sampleParameter
 
Methods inherited from class statalign.model.subst.SubstitutionModel
getMenuName, getMenuName, getPrior, getType, getType, updateSpan, updateTransitionMatrix
 
Methods inherited from class java.lang.Object
equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Field Detail

menuName

public static final java.lang.String menuName
See Also:
Constant Field Values
Constructor Detail

MtMam

public MtMam()
      throws java.io.IOException
Constructor used when instantiation is necessary.

Throws:
java.io.IOException