org.geworkbench.bison.datastructure.complex.pattern.matrix
Interface DSPositionSpecificAffintyMatrix

All Superinterfaces:
DSBioObject, DSDescribable, DSExtendable, DSIdentifiable, DSNamed, DSPValued, DSSequential, java.io.Serializable
All Known Implementing Classes:
CSPositionSpecificAffinityMatrix

public interface DSPositionSpecificAffintyMatrix
extends DSBioObject, DSPValued

Stores a position-specific affinity matrix (for example-- as produced by MatrixREDUCE).

Author:
John Watkinson

Method Summary
 long getBonferroni()
           
 double getCoeff()
           
 java.lang.String getConsensusSequence()
           
 java.lang.String getExperiment()
           
 java.lang.String getExperimentID()
           
 double[][] getScores()
           
 java.lang.String getSeedSequence()
           
 double getTValue()
           
 boolean isTrailingStrand()
           
 void setBonferroni(long bonferonni)
           
 void setCoeff(double F)
           
 void setConsensusSequence(java.lang.String consensusSequence)
           
 void setExperiment(java.lang.String experiment)
           
 void setExperimentID(java.lang.String id)
           
 void setScores(double[][] scores)
           
 void setSeedSequence(java.lang.String seedSequence)
           
 void setTrailingStrand(boolean trailingStrand)
           
 void setTValue(double t)
           
 
Methods inherited from interface org.geworkbench.bison.datastructure.properties.DSExtendable
addNameValuePair, allowMultipleValues, clearName, forceUniqueValue, getValuesForName, isUniqueValue
 
Methods inherited from interface org.geworkbench.bison.datastructure.properties.DSDescribable
getDescription, setDescription
 
Methods inherited from interface org.geworkbench.bison.datastructure.properties.DSIdentifiable
getID, setID
 
Methods inherited from interface org.geworkbench.bison.datastructure.properties.DSSequential
getSerial, setSerial
 
Methods inherited from interface org.geworkbench.bison.datastructure.properties.DSNamed
getLabel, setLabel
 
Methods inherited from interface org.geworkbench.bison.datastructure.bioobjects.DSPValued
getPValue, setPValue
 

Method Detail

getExperiment

java.lang.String getExperiment()

getExperimentID

java.lang.String getExperimentID()

getSeedSequence

java.lang.String getSeedSequence()

getConsensusSequence

java.lang.String getConsensusSequence()

getBonferroni

long getBonferroni()

getTValue

double getTValue()

getCoeff

double getCoeff()

getScores

double[][] getScores()

isTrailingStrand

boolean isTrailingStrand()

setExperiment

void setExperiment(java.lang.String experiment)

setExperimentID

void setExperimentID(java.lang.String id)

setSeedSequence

void setSeedSequence(java.lang.String seedSequence)

setConsensusSequence

void setConsensusSequence(java.lang.String consensusSequence)

setScores

void setScores(double[][] scores)

setBonferroni

void setBonferroni(long bonferonni)

setTValue

void setTValue(double t)

setCoeff

void setCoeff(double F)

setTrailingStrand

void setTrailingStrand(boolean trailingStrand)