Class DiffExAnalyzerUtilsRNameTest

java.lang.Object

ubic.gemma.core.analysis.expression.diff.DiffExAnalyzerUtilsRNameTest

public class DiffExAnalyzerUtilsRNameTest
extends Object

Unit tests for the R-friendly name helpers in DiffExAnalyzerUtils + the interaction-term formatter. These helpers are consumed by the differential-expression pipeline when it ships a design matrix off to R; the naming contract (prefix + id, baseline suffix) is what lets us round-trip coefficient names back to factor / factor-value objects on the Java side.

Author:

claude

Constructor Summary

Constructors

Constructor	Description
DiffExAnalyzerUtilsRNameTest()

Method Summary

Modifier and Type	Method	Description
void	formatInteraction_joinsFactorNamesByColon_sortedDeterministic()
void	formatInteraction_singleFactor_returnsBareFactorName()
void	nameForR_bioMaterial_prependsBiomatPrefix()
void	nameForR_bioMaterial_withNullId_throws()
void	nameForR_compositeSequence_returnsStringifiedId()
void	nameForR_compositeSequence_withNullId_throws()
void	nameForR_experimentalFactor_prependsFactPrefix()
void	nameForR_experimentalFactor_withNullId_throws()
void	nameForR_factorValue_categoricalBaseline_appendsBaselineSuffix()
void	nameForR_factorValue_categoricalNonBaseline_prependsFvPrefix()
void	nameForR_factorValue_continuousMarkedAsBaseline_throws()
void	nameForR_factorValue_continuousNotBaseline_works()
void	nameForR_factorValue_withNullId_throws()

Methods inherited from class Object

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

Constructor Details

DiffExAnalyzerUtilsRNameTest

public DiffExAnalyzerUtilsRNameTest()

Method Details

nameForR_bioMaterial_prependsBiomatPrefix

@Test
public void nameForR_bioMaterial_prependsBiomatPrefix()

nameForR_bioMaterial_withNullId_throws

@Test
public void nameForR_bioMaterial_withNullId_throws()

nameForR_experimentalFactor_prependsFactPrefix

@Test
public void nameForR_experimentalFactor_prependsFactPrefix()

nameForR_experimentalFactor_withNullId_throws

@Test
public void nameForR_experimentalFactor_withNullId_throws()

nameForR_factorValue_categoricalNonBaseline_prependsFvPrefix

@Test
public void nameForR_factorValue_categoricalNonBaseline_prependsFvPrefix()

nameForR_factorValue_categoricalBaseline_appendsBaselineSuffix

@Test
public void nameForR_factorValue_categoricalBaseline_appendsBaselineSuffix()

nameForR_factorValue_continuousMarkedAsBaseline_throws

@Test
public void nameForR_factorValue_continuousMarkedAsBaseline_throws()

nameForR_factorValue_continuousNotBaseline_works

@Test
public void nameForR_factorValue_continuousNotBaseline_works()

nameForR_factorValue_withNullId_throws

@Test
public void nameForR_factorValue_withNullId_throws()

nameForR_compositeSequence_returnsStringifiedId

@Test
public void nameForR_compositeSequence_returnsStringifiedId()

nameForR_compositeSequence_withNullId_throws

@Test
public void nameForR_compositeSequence_withNullId_throws()

formatInteraction_joinsFactorNamesByColon_sortedDeterministic

@Test
public void formatInteraction_joinsFactorNamesByColon_sortedDeterministic()

formatInteraction_singleFactor_returnsBareFactorName

@Test
public void formatInteraction_singleFactor_returnsBareFactorName()