org.geworkbench.bison.datastructure.bioobjects.microarray
Interface DSSignificanceResultSet<T extends DSGeneMarker>

All Superinterfaces:

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

All Known Subinterfaces:

DSAnovaResultSet<T>, DSTTestResultSet<T>

All Known Implementing Classes:

CSAnovaResultSet, CSSignificanceResultSet, CSTTestResultSet

public interface DSSignificanceResultSet<T extends DSGeneMarker>
extends DSAncillaryDataSet

Version:

$Id: DSSignificanceResultSet.java,v 1.10 2008-07-16 21:36:25 chiangy Exp $

Author:

John Watkinson

Field Summary

static int	CASE
static int	CONTROL

Method Summary

void	addSigGenToPanel(T marker)
double	getCriticalPValue()
java.lang.Double	getFoldChange(T marker)
java.lang.String[]	getLabels(int index)
DSMicroarraySet	getParentDataSet() Gets the parent data set for this ancillary data set.
java.lang.Double	getSignificance(T marker) Gets the significance value for the marker.
DSPanel<T>	getSignificantMarkers()
java.lang.Double	getTValue(T marker)
void	saveToFile(java.lang.String filename)
void	setFoldChange(T marker, double signficance)
void	setMarker(T marker, double signficance)
void	setSignificance(T marker, double signficance)
void	setTValue(T marker, double value)
void	sortMarkersBySignificance()

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

getDataSetFile, setDataSetFile

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

Field Detail

CASE

static final int CASE

See Also:

Constant Field Values

CONTROL

static final int CONTROL

See Also:

Constant Field Values

Method Detail

getSignificance

java.lang.Double getSignificance(T marker)

Gets the significance value for the marker.

setSignificance

void setSignificance(T marker,
                     double signficance)

setTValue

void setTValue(T marker,
               double value)

getTValue

java.lang.Double getTValue(T marker)

getFoldChange

java.lang.Double getFoldChange(T marker)

setFoldChange

void setFoldChange(T marker,
                   double signficance)

getSignificantMarkers

DSPanel<T> getSignificantMarkers()

getCriticalPValue

double getCriticalPValue()

getLabels

java.lang.String[] getLabels(int index)

getParentDataSet

DSMicroarraySet getParentDataSet()

Description copied from interface: DSAncillaryDataSet

Gets the parent data set for this ancillary data set.

Specified by:

getParentDataSet in interface DSAncillaryDataSet

Returns:

sortMarkersBySignificance

void sortMarkersBySignificance()

setMarker

void setMarker(T marker,
               double signficance)

addSigGenToPanel

void addSigGenToPanel(T marker)

saveToFile

void saveToFile(java.lang.String filename)