org.geworkbench.bison.algorithm.classification
Class CSVisualClassifier

java.lang.Object
  java.util.AbstractCollection<E>
      java.util.AbstractList<E>
          java.util.ArrayList<T>
              org.geworkbench.bison.datastructure.complex.panels.CSItemList<T>
                  org.geworkbench.bison.datastructure.complex.panels.CSSequentialItemList<T>
                      org.geworkbench.bison.datastructure.biocollections.CSDataSet<T>
                          org.geworkbench.bison.datastructure.biocollections.CSAncillaryDataSet
                              org.geworkbench.bison.algorithm.classification.CSClassifier
                                  org.geworkbench.bison.algorithm.classification.CSVisualClassifier

All Implemented Interfaces:

java.io.Serializable, java.lang.Cloneable, java.lang.Iterable, java.util.Collection, java.util.List, java.util.RandomAccess, DSAncillaryDataSet, DSDataSet, DSItemList, DSDescribable, DSExtendable, DSIdentifiable, DSNamed

public class CSVisualClassifier
extends CSClassifier

This class capture the state that represent a VisualGPClassifier object, or just enough to reproduce a VisualGPClassifier object. The later option may be a smaller footprint and cost.

Author:

zji

See Also:

Serialized Form

Field Summary

Fields inherited from class org.geworkbench.bison.datastructure.biocollections.CSDataSet

absPath, arraySetId, compatibilityLabel, dataSetProperties, descriptions, dirty, experimentInfo, extend, file, label, maResource

Fields inherited from class org.geworkbench.bison.datastructure.complex.panels.CSItemList

objectMap

Fields inherited from class java.util.AbstractList

modCount

Constructor Summary

CSVisualClassifier(DSDataSet<?> parent, java.lang.String label, java.lang.String[] classifications, byte[] modelFileContent, java.util.List<java.lang.String> featureNames, DSPanel<DSMicroarray> casePanel, DSPanel<DSMicroarray> controlPanel)

Method Summary

int	classify(float[] data) Runs a classification on the given object.
DSPanel<DSMicroarray>	getCasePanel()
DSPanel<DSMicroarray>	getControlPanel()
java.util.List<java.lang.String>	getFeatureNames()
byte[]	getModelFileContent()

Methods inherited from class org.geworkbench.bison.algorithm.classification.CSClassifier

getClassifications, getDataSetFile, setDataSetFile

Methods inherited from class org.geworkbench.bison.datastructure.biocollections.CSAncillaryDataSet

getParentDataSet, setParent

Methods inherited from class org.geworkbench.bison.datastructure.biocollections.CSDataSet

addDescription, addNameValuePair, addObject, allowMultipleValues, clearName, forceUniqueValue, getCompatibilityLabel, getDataSetName, getDescriptions, getExperimentInformation, getFile, getID, getLabel, getObject, getPath, getValuesForName, isActive, isDirty, isUniqueValue, readFromResource, removeDescription, removeResource, setAbsPath, setDirty, setExperimentInformation, setFile, setID, setLabel, setResource, toString, writeToFile, writeToResource

Methods inherited from class org.geworkbench.bison.datastructure.complex.panels.CSSequentialItemList

add, add, remove

Methods inherited from class org.geworkbench.bison.datastructure.complex.panels.CSItemList

addAll, clear, equals, get, get, hashCode, rename

Methods inherited from class java.util.ArrayList

addAll, clone, contains, ensureCapacity, get, indexOf, isEmpty, lastIndexOf, remove, removeRange, set, size, toArray, toArray, trimToSize

Methods inherited from class java.util.AbstractList

iterator, listIterator, listIterator, subList

Methods inherited from class java.util.AbstractCollection

containsAll, removeAll, retainAll

Methods inherited from class java.lang.Object

finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface org.geworkbench.bison.datastructure.biocollections.DSDataSet

addObject, getCompatibilityLabel, getDataSetName, getExperimentInformation, getFile, getObject, getPath, isActive, readFromResource, removeResource, setAbsPath, setExperimentInformation, setFile, setResource, writeToFile, writeToResource

Methods inherited from interface org.geworkbench.bison.datastructure.properties.DSDescribable

addDescription, getDescriptions, removeDescription

Methods inherited from interface org.geworkbench.bison.datastructure.properties.DSNamed

getLabel, setLabel

Methods inherited from interface org.geworkbench.bison.datastructure.properties.DSExtendable

addNameValuePair, allowMultipleValues, clearName, forceUniqueValue, getValuesForName, isUniqueValue

Methods inherited from interface org.geworkbench.bison.datastructure.complex.panels.DSItemList

get, get, rename

Methods inherited from interface java.util.List

add, add, addAll, addAll, clear, contains, containsAll, equals, get, hashCode, indexOf, isEmpty, iterator, lastIndexOf, listIterator, listIterator, remove, remove, removeAll, retainAll, set, size, subList, toArray, toArray

Methods inherited from interface org.geworkbench.bison.datastructure.properties.DSIdentifiable

getID, setID

Constructor Detail

CSVisualClassifier

public CSVisualClassifier(DSDataSet<?> parent,
                          java.lang.String label,
                          java.lang.String[] classifications,
                          byte[] modelFileContent,
                          java.util.List<java.lang.String> featureNames,
                          DSPanel<DSMicroarray> casePanel,
                          DSPanel<DSMicroarray> controlPanel)

Method Detail

getModelFileContent

public byte[] getModelFileContent()

getFeatureNames

public java.util.List<java.lang.String> getFeatureNames()

classify

public int classify(float[] data)

Description copied from class: CSClassifier

Runs a classification on the given object.

Specified by:

classify in class CSClassifier

Parameters:

data - the data to classify.

Returns:

a classification of the given object, which is an index in to the array returned by CSClassifier.getClassifications()

getControlPanel

public DSPanel<DSMicroarray> getControlPanel()

getCasePanel

public DSPanel<DSMicroarray> getCasePanel()