Package | Description |
---|---|
ubic.erminej | |
ubic.erminej.data | |
ubic.erminej.gui | |
ubic.erminej.gui.analysis | |
ubic.erminej.gui.file | |
ubic.erminej.gui.geneset | |
ubic.erminej.gui.geneset.table | |
ubic.erminej.gui.geneset.tree |
Modifier and Type | Field and Description |
---|---|
protected Settings |
classScoreCMD.settings |
Constructor and Description |
---|
ErmineJGui(Settings settings) |
Modifier and Type | Method and Description |
---|---|
Settings |
GeneSetDetails.getSettings() |
Modifier and Type | Method and Description |
---|---|
GeneAnnotations |
GeneAnnotationParser.read(String fileName,
GeneAnnotationParser.Format format,
Settings settings) |
Constructor and Description |
---|
GeneScores(Collection<String> identifiers,
Settings settings,
StatusViewer m,
GeneAnnotations geneAnnotations,
String outputFileName)
Constructor for the case when we are just taking in a hit list.
|
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.
|
GeneSetTerms(String fileName,
Settings settings) |
Modifier and Type | Method and Description |
---|---|
Settings |
MainFrame.getSettings() |
Constructor and Description |
---|
MainFrame(Settings settings) |
SaveAnalysisDialog(MainFrame owner,
Settings settings,
int initialSelection) |
StartupPanel(Settings settings,
StatusViewer statusMessenger) |
Constructor and Description |
---|
AnalysisWizardStep1(AnalysisWizard wiz,
Settings settings) |
AnalysisWizardStep2(AnalysisWizard wiz,
Settings settings) |
AnalysisWizardStep3(AnalysisWizard wizard,
Settings settings) |
AnalysisWizardStep4(AnalysisWizard wiz,
Settings settings) |
AnalysisWizardStep5(AnalysisWizard wiz,
Settings settings) |
Constructor and Description |
---|
DataDirectoryDialog(Settings settings) |
Modifier and Type | Field and Description |
---|---|
protected Settings |
GeneSetPanel.settings |
Constructor and Description |
---|
GeneSetPanel(Settings settings,
MainFrame callingFrame) |
Constructor and Description |
---|
GeneSetTablePanel(MainFrame callingFrame,
Settings settings) |
Constructor and Description |
---|
GeneSetTreePanel(MainFrame callingFrame,
Settings settings) |
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