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Packages that use BiggestsFrame | |
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biggests.gui |
Uses of BiggestsFrame in biggests.gui |
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Fields in biggests.gui declared as BiggestsFrame | |
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protected BiggestsFrame |
PanelAnalyzingMatrixTables.mainFrame
The application's main frame. |
protected BiggestsFrame |
PanelExpression.mainFrame
The application's main frame, where this panel is being displayed. |
Methods in biggests.gui that return BiggestsFrame | |
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BiggestsFrame |
PanelAnalyzingFunctionSignificanceGraph.getMainFrame()
Returns the application's main frame. |
BiggestsFrame |
PanelAnalyzingMatrixTables.getMainFrame()
Returns the application's main frame. |
BiggestsFrame |
PanelBiclustering.getMainFrame()
Returns the application's main frame. |
BiggestsFrame |
PanelExpression.getMainFrame()
Returns the application's main frame, where this panel is being displayed. |
BiggestsFrame |
PanelFunctionAnalysis.getMainFrame()
Returns the application's main frame. |
BiggestsFrame |
PanelPostProcessing.getMainFrame()
Returns the frame of the application. |
BiggestsFrame |
PanelPreProcessing.getMainFrame()
Returns the application's main frame. |
Methods in biggests.gui with parameters of type BiggestsFrame | |
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static void |
BiggestsIO.restoreSession(BiggestsFrame frame,
java.lang.String pathToSessionArchive)
Restores a session from a .zip archive file. |
static void |
BiggestsIO.restoreSession2(BiggestsFrame frame,
java.lang.String pathToSessionArchive)
Restores a session from a .zip archive file. |
Constructors in biggests.gui with parameters of type BiggestsFrame | |
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PanelAnalyzingFunctionSignificanceGraph(BiggestsFrame frame)
Creates a new function analysis - significance graph panel. |
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PanelAnalyzingFunctionTable(BiggestsFrame frame)
Creates a new PanelAnalyzingFunctionTable . |
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PanelAnalyzingMatrixDendrogram(BiggestsFrame frame)
Creates a new PanelAnalyzingMatrixDendrogram with options to perform hierarchical clustering over a set of expression data. |
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PanelAnalyzingMatrixTables(BiggestsFrame frame,
int tableType)
Creates a new panel to display tables. |
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PanelBiclustering(BiggestsFrame frame)
Creates a new biclustering panel, with biclustering algorithms options. |
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PanelExpression(BiggestsFrame frame,
int expressionType)
Creates a new panel to display expression charts. |
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PanelFunctionAnalysis(BiggestsFrame frame)
Creates a new PanelFunctionAnalysis . |
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PanelLoading(BiggestsFrame frame)
Creates a new loading panel. |
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PanelPostProcessing(BiggestsFrame frame)
Creates a new post-processing panel. |
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PanelPreProcessing(BiggestsFrame frame)
Creates a new preprocessing panel. |
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ThreadBiclustering(BiggestsFrame frame,
smadeira.biclustering.Biclustering biclustering,
javax.swing.tree.TreePath selectionPath)
Creates a new ThreadBiclusteringFunctionAnalysis |
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ThreadDownloadGOFiles(BiggestsFrame frame,
PanelFunctionAnalysis panel,
java.lang.String filename)
Creates a new thread to download a gene ontology/association file. |
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ThreadFunctionAnalysis(BiggestsFrame frame,
smadeira.biclustering.Biclustering biclustering,
javax.swing.tree.TreePath selectionPath,
de.schlichtherle.io.File[] goFiles,
de.schlichtherle.io.File directoryFunctionResults,
float pvalue)
Creates a new ThreadFunctionAnalysis . |
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ThreadFunctionAnalysis(BiggestsFrame frame,
smadeira.biclustering.Biclustering biclustering,
javax.swing.tree.TreePath selectionPath,
smadeira.ontologizer.GOFrontEnd go,
de.schlichtherle.io.File directoryFunctionResults,
float pvalue)
Creates a new ThreadFunctionAnalysis . |
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ThreadFunctionAnalysis(BiggestsFrame frame,
smadeira.biclustering.Biclustering biclustering,
javax.swing.tree.TreePath selectionPath,
java.lang.String pathToGeneOntologyFile,
java.lang.String pathToGeneAssociationFile,
de.schlichtherle.io.File directoryFunctionResults,
float pvalue)
Creates a new ThreadFunctionAnalysis . |
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ThreadFunctionAnalysis(BiggestsFrame frame,
smadeira.biclustering.Bicluster bicluster,
javax.swing.tree.TreePath selectionPath,
de.schlichtherle.io.File[] goFiles,
de.schlichtherle.io.File directoryBiclusteringFunctionResults,
float pvalue)
Creates a new Function Analysis Thread to perform function analysis on a bicluster. |
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ThreadFunctionAnalysis(BiggestsFrame frame,
smadeira.biclustering.Bicluster bicluster,
javax.swing.tree.TreePath selectionPath,
smadeira.ontologizer.GOFrontEnd go,
de.schlichtherle.io.File directoryFunctionResults,
float pvalue)
Creates a new ThreadFunctionAnalysis . |
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ThreadFunctionAnalysis(BiggestsFrame frame,
smadeira.biclustering.Bicluster bicluster,
javax.swing.tree.TreePath selectionPath,
java.lang.String pathToGeneOntologyFile,
java.lang.String pathToGeneAssociationFile,
java.lang.String directoryFunctionResults,
float pvalue)
Creates a new Function Analysis Thread to perform function analysis on a bicluster. |
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ThreadFunctionAnalysis(BiggestsFrame frame,
smadeira.biclustering.IMatrix matrix,
javax.swing.tree.TreePath selectionPath,
de.schlichtherle.io.File[] goFiles,
de.schlichtherle.io.File directoryFunctionResults,
java.lang.String filenameDOT,
float pvalue)
Creates a new Function Analysis Thread to perform function analysis over a matrix. |
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ThreadFunctionAnalysis(BiggestsFrame frame,
smadeira.biclustering.IMatrix matrix,
javax.swing.tree.TreePath selectionPath,
smadeira.ontologizer.GOFrontEnd go,
de.schlichtherle.io.File directoryFunctionResults,
java.lang.String filenameDOT,
float pvalue)
Creates a new Function Analysis Thread to perform function analysis on a matrix. |
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ThreadFunctionAnalysis(BiggestsFrame frame,
smadeira.biclustering.IMatrix matrix,
javax.swing.tree.TreePath selectionPath,
java.lang.String pathToGeneOntologyFile,
java.lang.String pathToGeneAssociationFile,
de.schlichtherle.io.File directoryFunctionResults,
java.lang.String filenameDOT,
float pvalue)
Creates a new Function Analysis Thread to perform function analysis over a matrix. |
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ThreadHierarchicalClustering(BiggestsFrame frame,
HierarchicalClustering hierarchicalClustering,
char genesMetric,
char conditionsMetric,
char clusteringMethod,
java.lang.String outputFilesDirectoryPath,
java.lang.String jobName)
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