Package ubic.basecode.datafilter

Class TestRowLevelFilter

java.lang.Object

ubic.basecode.datafilter.AbstractTestFilter

ubic.basecode.datafilter.TestRowLevelFilter

public class TestRowLevelFilter
extends AbstractTestFilter

Author:

pavlidis

Field Summary

Fields inherited from class ubic.basecode.datafilter.AbstractTestFilter

testdata, testmissingdata, teststringdata, teststringmissingdata

Constructor Summary

Constructors

Constructor	Description
TestRowLevelFilter()

Method Summary

Modifier and Type	Method	Description
void	setUp()
void	testFilterBadFraction()
void	testFilterFractionMaxRemoveHighAndLow()
void	testFilterFractionMaxRemoveHighAndLowBothFraction()
void	testFilterFractionMaxRemoveHighAndLowBothLevels()
void	testFilterFractionMaxRemoveHighAndLowBothLevelsNegLow()
void	testFilterFractionMaxRemoveHighAndLowBothLevelsNoNegRemove()
void	testFilterFractionMaxRemoveNeg()
void	testFilterFractionMaxRemoveNegHigh()
void	testFilterMax()
void	testFilterMaxFraction()
void	testFilterMaxFractionAll()
void	testFilterMaxFractionHigh()
void	testFilterMaxFractionNone()
void	testFilterMaxFractionNoneRemoveNeg()
void	testFilterMaxHigh()
void	testFilterMaxTooHigh()
void	testFilterMean()
void	testFilterMeanHigh()
void	testFilterMedian()	mm<-read.table("testdata.txt", header=T, row.names=1) length(which(apply(mm, 1, median) > 100))
void	testFilterMedianHigh()	mm<-read.table("testdata.txt", header=T, row.names=1) length(which(apply(mm, 1, median) < 1000))
void	testFilterMin()
void	testFilterMinHigh()
void	testFilterNoFilter()

Methods inherited from class ubic.basecode.datafilter.AbstractTestFilter

tearDown

Methods inherited from class java.lang.Object

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

Constructor Detail

TestRowLevelFilter

public TestRowLevelFilter()

Method Detail

setUp

public void setUp()
           throws Exception

Overrides:

setUp in class AbstractTestFilter

Throws:

Exception

testFilterBadFraction

public final void testFilterBadFraction()

testFilterFractionMaxRemoveHighAndLow

public final void testFilterFractionMaxRemoveHighAndLow()

testFilterFractionMaxRemoveHighAndLowBothFraction

public final void testFilterFractionMaxRemoveHighAndLowBothFraction()

testFilterFractionMaxRemoveHighAndLowBothLevels

public final void testFilterFractionMaxRemoveHighAndLowBothLevels()

testFilterFractionMaxRemoveHighAndLowBothLevelsNegLow

public final void testFilterFractionMaxRemoveHighAndLowBothLevelsNegLow()

testFilterFractionMaxRemoveHighAndLowBothLevelsNoNegRemove

public final void testFilterFractionMaxRemoveHighAndLowBothLevelsNoNegRemove()

testFilterFractionMaxRemoveNeg

public final void testFilterFractionMaxRemoveNeg()

testFilterFractionMaxRemoveNegHigh

public final void testFilterFractionMaxRemoveNegHigh()

testFilterMax

public final void testFilterMax()

testFilterMaxFraction

public final void testFilterMaxFraction()

testFilterMaxFractionAll

public final void testFilterMaxFractionAll()

testFilterMaxFractionHigh

public final void testFilterMaxFractionHigh()

testFilterMaxFractionNone

public final void testFilterMaxFractionNone()

testFilterMaxFractionNoneRemoveNeg

public final void testFilterMaxFractionNoneRemoveNeg()

testFilterMaxHigh

public final void testFilterMaxHigh()

testFilterMaxTooHigh

public final void testFilterMaxTooHigh()

testFilterMean

public final void testFilterMean()

testFilterMeanHigh

public final void testFilterMeanHigh()

testFilterMedian

public final void testFilterMedian()

 mm<-read.table("testdata.txt", header=T, row.names=1) 
 length(which(apply(mm, 1, median) > 100))
 

testFilterMedianHigh

public final void testFilterMedianHigh()

 mm<-read.table("testdata.txt", header=T, row.names=1)
   length(which(apply(mm, 1, median) < 1000))
 
 

testFilterMin

public final void testFilterMin()

testFilterMinHigh

public final void testFilterMinHigh()

testFilterNoFilter

public final void testFilterNoFilter()