baseCode.dataFilter
Class RowMissingFilter

java.lang.Object
  baseCode.dataFilter.AbstractFilter
      baseCode.dataFilter.RowMissingFilter

All Implemented Interfaces:

Filter

public class RowMissingFilter

extends AbstractFilter

implements Filter

Remove rows from a matrix that are missing too many points.

Copyright (c) 2004 Columbia University

Version:

$Id: RowMissingFilter.java,v 1.4 2004/07/27 03:18:58 pavlidis Exp $

Author:

Paul Pavlidis

Field Summary

Fields inherited from class baseCode.dataFilter.AbstractFilter

log

Constructor Summary

RowMissingFilter()

Method Summary

NamedMatrix	filter(NamedMatrix data) Filter the data
void	setMaxFractionRemoved(double f) Set the maximum fraction of rows which will be removed from the data set.
void	setMinPresentCount(int m) Set the minimum number of values that must be present in each row.
void	setMinPresentFraction(double k)

Methods inherited from class baseCode.dataFilter.AbstractFilter

getOutputMatrix

Methods inherited from class java.lang.Object

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

Constructor Detail

RowMissingFilter

public RowMissingFilter()

Method Detail

setMinPresentCount

public void setMinPresentCount(int m)

Set the minimum number of values that must be present in each row. The default value is 5. This is always overridden by a hard-coded value (currently 2) that must be present for a row to be kept; but this value is in turn overridden by the maxfractionRemoved.

Parameters:

m - int

setMinPresentFraction

public void setMinPresentFraction(double k)

Parameters:

k - double the fraction of values to be removed.

setMaxFractionRemoved

public void setMaxFractionRemoved(double f)

Set the maximum fraction of rows which will be removed from the data set. The default value is 0.3 Set it to 1.0 to remove this restriction.

Parameters:

f - double

filter

public NamedMatrix filter(NamedMatrix data)

Description copied from interface: Filter

Filter the data

Specified by:

filter in interface Filter

Parameters:

data - a NamedMatrix. Some types of filters require that this be of a particular type of implementation of the Filter interface.

Returns:

The resulting filtered matrix