adams.data.filter
Class Standardize

java.lang.Object
  adams.core.ConsoleObject
      adams.core.option.AbstractOptionHandler
          adams.data.filter.AbstractFilter<Heatmap>
              adams.data.filter.Standardize

All Implemented Interfaces:

CleanUpHandler, Debuggable, Destroyable, OptionHandler, ShallowCopySupporter<AbstractFilter>, SizeOfHandler, Serializable, Comparable

public class Standardize
extends AbstractFilter<Heatmap>

Standardizes the values of a heatmap to have mean of 1 and stdev 1.
NB: normally, the mean is 0 when standardizing, but heatmaps only allow positive values.

Valid options are:

-D <int> (property: debugLevel)
    The greater the number the more additional info the scheme may output to
    the console (0 = off).
    default: 0
    minimum: 0
 

Version:

$Revision: 6027 $

Author:

fracpete (fracpete at waikato dot ac dot nz)

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class adams.data.filter.AbstractFilter

AbstractFilter.FilterJob<T extends DataContainer>

Field Summary

protected boolean

m_IsSample whether the arrays are samples or populations.

Fields inherited from class adams.core.option.AbstractOptionHandler

m_DebugLevel, m_OptionManager

Constructor Summary

Standardize()

Method Summary

String	globalInfo() Returns a string describing the object.
protected Heatmap	processData(Heatmap data) Performs the actual filtering.

Methods inherited from class adams.data.filter.AbstractFilter

checkData, cleanUp, compareTo, destroy, equals, filter, filter, filter, filter, filter, forCommandLine, forName, getFilters, reset, shallowCopy, shallowCopy

Methods inherited from class adams.core.option.AbstractOptionHandler

cleanUpOptions, debug, debug, debugLevelTipText, defineOptions, finishInit, getDebugLevel, getOptionManager, initialize, isDebugOn, newOptionManager, setDebugLevel, toCommandLine, toString

Methods inherited from class adams.core.ConsoleObject

getDebugging, getSystemErr, getSystemOut, sizeOf

Methods inherited from class java.lang.Object

clone, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

m_IsSample

protected boolean m_IsSample

whether the arrays are samples or populations.

Constructor Detail

Standardize

public Standardize()

Method Detail

globalInfo

public String globalInfo()

Returns a string describing the object.

Specified by:

globalInfo in class AbstractOptionHandler

Returns:

a description suitable for displaying in the gui

processData

protected Heatmap processData(Heatmap data)

Performs the actual filtering.

Specified by:

processData in class AbstractFilter<Heatmap>

Parameters:

data - the data to filter

Returns:

the filtered data