ambit2.model.structure

Class DataCoverageFingeprintsMissingFragments

java.lang.Object

ambit2.model.numeric.DataCoverage<List<BitSet>>

ambit2.model.structure.DataCoverageFingerprints

ambit2.model.structure.DataCoverageFingeprintsMissingFragments

All Implemented Interfaces:

IDataCoverage<List<BitSet>>, Serializable

public class DataCoverageFingeprintsMissingFragments
extends DataCoverageFingerprints

See Also:

Serialized Form

Field Summary

Fields inherited from class ambit2.model.structure.DataCoverageFingerprints

consensusFingerprint, fingerPrintLength, fingerprintsCalculated, fpProfile

Fields inherited from class ambit2.model.numeric.DataCoverage

appDomainMethodType, logger, object, pThreshold, threshold

Constructor Summary

Constructors

Constructor and Description
DataCoverageFingeprintsMissingFragments()

Method Summary

Modifier and Type	Method and Description
protected double	estimateThreshold(double[] profile, int npoints)
void	evaluate(List<BitSet> bitsets)
int	getDomain(double coverage)
int[]	getDomain(double[] coverage)
String	getDomainName()
String	getMetricName()
String	getName()
double[]	predict(List<BitSet> data)
protected double[]	zeroBits(List<BitSet> data)

Methods inherited from class ambit2.model.structure.DataCoverageFingerprints

arrayToString, build, buildStart, clear, clearProfile, estimateConsensusFP, getFingerPrintLength, getFingerprintsCalculated, histToString, isEmpty, profileToHistogram, profileToString, setFingerPrintLength

Methods inherited from class ambit2.model.numeric.DataCoverage

clone, getAppDomainMethodType, getId, getPoints, getPThreshold, setAppDomainMethodType, setDomainName, setMetricName, setMode, setParameters, setPThreshold, toString

Methods inherited from class java.lang.Object

equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Detail

DataCoverageFingeprintsMissingFragments

public DataCoverageFingeprintsMissingFragments()

Method Detail

evaluate

public void evaluate(List<BitSet> bitsets)

Specified by:

evaluate in class DataCoverageFingerprints

estimateThreshold

protected double estimateThreshold(double[] profile,
                                   int npoints)

zeroBits

protected double[] zeroBits(List<BitSet> data)

getDomain

public int getDomain(double coverage)

Specified by:

getDomain in interface IDataCoverage<List<BitSet>>

Overrides:

getDomain in class DataCoverageFingerprints

getDomain

public int[] getDomain(double[] coverage)

Specified by:

getDomain in interface IDataCoverage<List<BitSet>>

Overrides:

getDomain in class DataCoverageFingerprints

predict

public double[] predict(List<BitSet> data)

getName

public String getName()

Overrides:

getName in class DataCoverageFingerprints

getDomainName

public String getDomainName()

Specified by:

getDomainName in interface IDataCoverage<List<BitSet>>

Overrides:

getDomainName in class DataCoverage<List<BitSet>>

getMetricName

public String getMetricName()

Specified by:

getMetricName in interface IDataCoverage<List<BitSet>>

Overrides:

getMetricName in class DataCoverage<List<BitSet>>