public class GeneSetDetails extends Object
Modifier and Type | Field and Description |
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protected static org.apache.commons.logging.Log |
log |
Constructor and Description |
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GeneSetDetails(GeneSetTerm classID,
GeneAnnotations geneData,
StatusViewer callerStatusViewer)
Show without any results.
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GeneSetDetails(GeneSetTerm classID,
GeneSetResult result,
GeneAnnotations geneData,
Settings settings,
GeneScores geneScores,
StatusViewer statusViewer)
The data matrix will be read in based on the settings, or can be changed later.
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Modifier and Type | Method and Description |
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GeneSetTerm |
getClassID() |
DoubleMatrix<Probe,String> |
getDataMatrix() |
GeneAnnotations |
getGeneData() |
Collection<Probe> |
getProbes() |
Map<Probe,Double> |
getProbeScores()
Just for the probes in this set.
|
SettingsHolder |
getRunSettings() |
Settings |
getSettings() |
GeneScores |
getSourceGeneScores()
The full set of GeneScores from which this was derived.
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String |
getTitle() |
void |
loadDataMatrix(String filename)
Update or set the data matrix source.
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void |
setDataMatrix(DoubleMatrix<Probe,String> dm)
You only need to use this if you want to replace the matrix.
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void |
setGeneScores(GeneScores scores)
Switch out the gene scores.
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public GeneSetDetails(GeneSetTerm classID, GeneAnnotations geneData, StatusViewer callerStatusViewer)
classID
- geneData
- Should be the pruned set, if appropriatecallerStatusViewer
- public GeneSetDetails(GeneSetTerm classID, GeneSetResult result, GeneAnnotations geneData, Settings settings, GeneScores geneScores, StatusViewer statusViewer)
classID
- result
- - optionalgeneData
- Should be the pruned set, if appropriatesettings
- - optional, if not supplied will be read ingeneScores
- - optional, if not supplied will be read in based on settings.statusViewer
- public GeneSetTerm getClassID()
public DoubleMatrix<Probe,String> getDataMatrix()
public GeneAnnotations getGeneData()
public Collection<Probe> getProbes()
public SettingsHolder getRunSettings()
public Settings getSettings()
public GeneScores getSourceGeneScores()
public String getTitle()
res
- nf
- probeIDs
- public void loadDataMatrix(String filename)
filename
- public void setDataMatrix(DoubleMatrix<Probe,String> dm)
dm
- public void setGeneScores(GeneScores scores)
scores
- Copyright © 2002-2013 UBC Centre for High-Throughput Biology. All Rights Reserved.