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AbstractClustering
object to
perform clustering over the set of gene expression
data contained in expressionMatrix
.
AbstractMetricClustering
object to
perform clustering over the given set of
expression data.
mouseClicked
.
mouseClicked
.
StyledDocument
doc
size
and priority
.
fComponent
.
expressionData
and missingsMask
), using the distance matrix given by
distanceMatrix
.
filePath
has the required file
extension on it.
filePath
has the required file
extension on it.
pvalueTextField
Object
's clone
method.
ClusterTreeNode
's class describes a single
node in a tree created by hierarchical clustering.ClusterTreeNode
with left
,
right
and distance
attributes initialized
to 0.
ClusterTreeNode
with left
,
right
and distance
attributes initialized
to left
, right
and distance
argument values, respectively.
ClusterTreeNode
s, o1
and o2
.
dataToRank
.
dataToRank
.
bicluster
object.
JTable
's createDefaultTableHeader
method.
JTable
's createDefaultTableHeader
method.
JTable
's createDefaultTableHeader
method.
bicluster
and
biclustering
objects.
bicluster
.
bicluster
.
bicluster
.
bicluster
.
expressionDataset
and with the given
chartTitle
, conditionsAxisName
,
expressionAxisName
.
given genesNames
, conditionsNames
and
expressionValues
.
patternDataset
.
expressionDataset
.
pattern
(sequence of symbols) within
the given alphabet
(set of symbols that can appear
in pattern
).
bicluster
.
Dataset
object with the given id.
datasetFileTextField
's text.
address
.
LinkedViewApp
's endProgram
method (the original method would call System.exit(0) and cause
BiGGEsTS application to terminate, which we don't want to happen here).
Object
's equals
method.
BiclusteringInDiscretizedMatrix
) for which
the pattern p-value with columns is not significant.
BiclusteringInDiscretizedMatrix
) for which
the pattern p-value is not significant.
NodeInfo
object of a bicluster or
post-processed bicluster object with a specific id
.
Dataset
object.
NodeInfo
object to be
created in the dataset of the given selected path.
column
.
TableSorter
's getColumnClass
method.
TableSorter
's getColumnClass
method.
TableSorterValues
's getColumnClass
method.
TableSorter
's getColumnClass
method.
column
.
column
.
TableSorter
's getComparator
method.
TableSorter
's getComparator
method.
TableSorterValues
's getComparator
method.
TableSorter
's getComparator
method.
meanValue
to find the red or green
color component to colorize the cell.
Color
used to mark even rows that are not selected.
Color
used to mark even rows that are not selected.
GOFrontEnd
for the given
selectionPath
, if it exists, otherwise returns null.
GOFrontEnd
of
the given selectionPath
.
column
.
Color
used to mark highly significant terms.
NodeInfo
object.
- getInfo() -
Method in class biggests.tree.NodeInfo
- Returns a styled document containing information about this node.
- getInfoStrings() -
Method in class biggests.tree.NodeInfo
- Returns information strings.
- getInfoStyles() -
Method in class biggests.tree.NodeInfo
- Returns information styles.
- getInvalidDirectoryPaths() -
Method in class biggests.utils.FileFilterDirectory
- Returns this file filter invalid directory paths.
- getLabelContext() -
Method in class biggests.gui.BiggestsFrame
- Returns the context label, which displays tips about functionality
options to user.
- getLastBiclusterGroupId() -
Method in class biggests.tree.Dataset
- Returns the last id given to a bicluster group node information object
within the current dataset.
- getLastDiscretizedId() -
Method in class biggests.tree.Dataset
- Returns the last id given to a discretized node information object
within the current dataset.
- getLastPostprocessedGroupId() -
Method in class biggests.tree.Dataset
- Returns the last id given to a post-processed group node information
object within the current dataset.
- getLastPreprocessedId() -
Method in class biggests.tree.Dataset
- Returns the last id given to a preprocessed node information object
within the current dataset.
- getLeft() -
Method in class biggests.clustering.ClusterTreeNode
- Returns the index of the left element or node (left son).
- getMainFrame() -
Method in class biggests.gui.PanelAnalyzingFunctionSignificanceGraph
- Returns the application's main frame.
- getMainFrame() -
Method in class biggests.gui.PanelAnalyzingMatrixTables
- Returns the application's main frame.
- getMainFrame() -
Method in class biggests.gui.PanelBiclustering
- Returns the application's main frame.
- getMainFrame() -
Method in class biggests.gui.PanelExpression
- Returns the application's main frame, where this panel is being displayed.
- getMainFrame() -
Method in class biggests.gui.PanelFunctionAnalysis
- Returns the application's main frame.
- getMainFrame() -
Method in class biggests.gui.PanelPostProcessing
- Returns the frame of the application.
- getMainFrame() -
Method in class biggests.gui.PanelPreProcessing
- Returns the application's main frame.
- getMarkovChainOrderFilterTextField() -
Method in class biggests.gui.PanelPostProcessing
- Returns Markov chain order input text field.
- getMarkovChainOrderSortTextField() -
Method in class biggests.gui.PanelPostProcessing
- Returns Markov chain order input text field.
- getMeanValue() -
Method in class biggests.tables.TableColors
- Returns the mean value of the float values in the table.
- getMeanValueColor() -
Static method in class biggests.utils.HeatmapColorScheme
-
- getMenu() -
Method in class biggests.gui.BiggestsFrame
- Returns the application's menu bar.
- getMessageHistory() -
Method in class biggests.utils.ProgressBarFrame
- Returns message history.
- getMissingValue() -
Method in class biggests.tables.TableColorsWithMissingValues
- Returns the value used to mark cells which correspond to missing
values on the original gene expression data.
- getMissingValueColor() -
Static method in class biggests.utils.HeatmapColorScheme
-
- getMSRTextField() -
Method in class biggests.gui.PanelPostProcessing
- Returns MSR threshold input text field.
- getName() -
Method in class biggests.tree.Dataset
- Returns the name of this dataset.
- getName() -
Method in class biggests.tree.NodeInfo
- Returns the name of this node information object.
- getNeighborsECCCLabel() -
Method in class biggests.gui.PanelBiclustering
- Label for the number of neighbors on e-CCC-Biclustering algorithm.
- getNeighborsECCCTextField() -
Method in class biggests.gui.PanelBiclustering
- Text field for the input of number of neighbors for
e-CCC-Biclustering algorithm.
- getNodeInfo() -
Method in class biggests.gui.PanelAnalyzingMatrixTables
- Returns the node information object containing the object with the data
to display in the table.
- getNodeObject() -
Method in class biggests.gui.PanelAnalyzingFunctionTable
- Returns the bicluster group that is being processed.
- getNodeObject() -
Method in class biggests.tree.NodeInfo
- Returns the node object associated with the current node information object.
- getNodeObjectType() -
Method in class biggests.tree.NodeInfo
- Returns the node object type.
- getNormalize() -
Method in class biggests.gui.PanelExpression
- Returns the check box which allows the user to choose between an
expression chart with original or normalized data.
- getNormalizeButtonGroup() -
Method in class biggests.gui.PanelPreProcessing
- Returns normalize options button group.
- getNormalizeByGeneButton() -
Method in class biggests.gui.PanelPreProcessing
- Returns normalize by gene button.
- getNormalizeCheckBox() -
Method in class biggests.gui.PanelPreProcessing
- Returns normalize check box.
- getNormalizeMean0Std1Button() -
Method in class biggests.gui.PanelPreProcessing
- Returns normalize to mean 0 and std 1 button.
- getNormalizeMeanStdButtonGroup() -
Method in class biggests.gui.PanelPreProcessing
- Returns normalize to mean and std options button group.
- getNormalizeMeanStdValuesButton() -
Method in class biggests.gui.PanelPreProcessing
- Returns normalize by mean and std values button.
- getNormalizeMeanStdValuesLabel() -
Method in class biggests.gui.PanelPreProcessing
- Returns normalize to mean and std values label.
- getNormalizeMeanValueTextField() -
Method in class biggests.gui.PanelPreProcessing
- Return normalize mean input text field.
- getNormalizeOverallButton() -
Method in class biggests.gui.PanelPreProcessing
- Returns normalize overall values button.
- getNormalizeStdValueTextField() -
Method in class biggests.gui.PanelPreProcessing
- Returns normalize std input text field.
- getNumberOfDendrograms() -
Static method in class biggests.gui.PanelAnalyzingMatrixDendrogram
-
- getOddRowsColor() -
Method in class biggests.tables.TableFunctionGroup
- Returns the
Color
used to mark odd rows that are not selected.
- getOddRowsColor() -
Method in class biggests.tables.TableFunctionIndividual
- Returns the
Color
used to mark odd rows that are not selected.
- getOption() -
Method in class biggests.gui.PanelExpression
- Returns the combo box for the user to choose the number of biclusters
to display.
- getOrganism() -
Method in class biggests.gui.PanelFunctionAnalysis
- Returns the organism related with this function analysis.
- getOrganismLabel() -
Method in class biggests.gui.PanelFunctionAnalysis
- Returns the organism label.
- getPanelAnalyzingExpressionAllTimePoints() -
Method in class biggests.gui.BiggestsFrame
- Returns the expression analysis by all time points chart panel.
- getPanelAnalyzingFunctionSignificanceGraph() -
Method in class biggests.gui.BiggestsFrame
- Returns the function analysis - significance graph panel.
- getPanelAnalyzingFunctionTable() -
Method in class biggests.gui.BiggestsFrame
- Returns the function analysis - table panel.
- getPanelAnalyzingMatrixColors() -
Method in class biggests.gui.BiggestsFrame
- Returns the matrix analysis by colors panel.
- getPanelAnalyzingMatrixDendrogram() -
Method in class biggests.gui.BiggestsFrame
- Returns the matrix analysis by dendrogram panel.
- getPanelAnalyzingMatrixSymbols() -
Method in class biggests.gui.BiggestsFrame
- Returns the matrix analysis by symbols panel.
- getPanelAnalyzingMatrixValues() -
Method in class biggests.gui.BiggestsFrame
- Returns the matrix analysis by values panel.
- getPanelBiclustering() -
Method in class biggests.gui.BiggestsFrame
- Returns biclustering panel.
- getPanelContent() -
Method in class biggests.gui.BiggestsFrame
- Returns this frames' content panel.
- getPanelExpressionBiclusterPattern() -
Method in class biggests.gui.BiggestsFrame
- Returns the expression analysis by bicluster pattern chart panel.
- getPanelExpressionBiclusterTimePoints() -
Method in class biggests.gui.BiggestsFrame
- Returns the expression analysis by bicluster time points chart panel.
- getPanelLoading() -
Method in class biggests.gui.BiggestsFrame
- Returns the loading panel.
- getPanelPreProcessing() -
Method in class biggests.gui.BiggestsFrame
- Returns preprocessing panel.
- getPanelRight() -
Method in class biggests.gui.BiggestsFrame
- Returns the panel on the right, which holds the tabs and
visualization panels.
- getPanels() -
Method in class biggests.gui.PanelAnalyzingMatrixTables
- Returns the set of panels which holds the tables and their headers,
which are displayed in this panel (for
COLORS
and SYMBOLS
tableType
s only).
- getParentNodeInfo() -
Method in class biggests.tree.NodeInfo
- Returns parent node information object.
- getPathsToFolders() -
Method in class biggests.gui.BiggestsFrame
- Returns the paths to function results, gene ontology files and sessions.
- getPathToDatasets() -
Method in class biggests.gui.BiggestsFrame
- Returns the path to the directory with dataset files.
- getPathToDOT() -
Method in class biggests.gui.BiggestsFrame
- Returns the path to dot binary file.
- getPathToFunctionResults() -
Method in class biggests.gui.BiggestsFrame
- Returns the path to function results' folder/directory.
- getPathToGO_Files() -
Method in class biggests.gui.BiggestsFrame
- Returns the path to gene ontology files folder/directory.
- getPathToImage() -
Method in class biggests.gui.PanelAnalyzingFunctionSignificanceGraph
- Returns the path to image.
- getPathToSessions() -
Method in class biggests.gui.BiggestsFrame
- Returns the path to stored session files folder/directory.
- getPathToSvg() -
Method in class biggests.gui.PanelAnalyzingFunctionSignificanceGraph
- Returns the path to svg.
- getProgressBar() -
Method in class biggests.utils.ProgressBarFrame
- Returns the progress bar.
- getPvalueLabel() -
Method in class biggests.gui.PanelFunctionAnalysis
- Returns p-value label.
- getPvalueTextField() -
Method in class biggests.gui.PanelFunctionAnalysis
- Returns text field for the input of a p-value.
- getRestrictedErrorsECCCCheckBox() -
Method in class biggests.gui.PanelBiclustering
- Returns restricted errors for e-CCC-Biclustering algorithm check box.
- getRight() -
Method in class biggests.clustering.ClusterTreeNode
- Returns the index of the right element or node (right son).
- getRoot() -
Method in class biggests.tree.DatasetTree
- Returns the root node of the dataset tree.
- getRowCount() -
Method in class biggests.tables.TableSorter
- Returns the number of rows in the table model.
- getScrollAnalyzingExpressionAllTimePoints() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which holds the expression
analysis - all time points chart panel.
- getScrollAnalyzingExpressionBiclusterPattern() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which holds the expression
analysis - bicluster pattern chart panel.
- getScrollAnalyzingExpressionBiclusterTimePoints() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which holds the expression
analysis - bicluster time points chart panel.
- getScrollAnalyzingFunctionSignificanceGraph() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which holds the function
analysis - significance graph panel.
- getScrollAnalyzingFunctionTable() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which holds the function
analysis - table of functions panel.
- getScrollAnalyzingMatrixColors() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which holds the matrix analysis by colors panel.
- getScrollAnalyzingMatrixSymbols() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which holds the matrix analysis by symbols panel.
- getScrollAnalyzingMatrixValues() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which holds the matrix analysis by values panel.
- getScrollBiclustering() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which scrolls biclustering panel.
- getScrollInfo() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which scrolls information text pane.
- getScrollLoading() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which scrolls loading panel.
- getScrollPreProcessing() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which scrolls preprocessing panel.
- getScrolls() -
Method in class biggests.gui.PanelAnalyzingMatrixTables
- Returns the array with the scroll panes that hold the tables to be
displayed (for
VALUES
tableType
only).
- getScrollTree() -
Method in class biggests.gui.BiggestsFrame
- Returns the scroll pane which scrolls the dataset tree.
- getSelectionPath() -
Method in class biggests.gui.PanelAnalyzingFunctionTable
- Returns the tree selection path that corresponds to the bicluster
or bicluster group that is being processed.
- getSelectionPath() -
Method in class biggests.gui.PanelBiclustering
- Returns the dataset tree selected path which corresponds to the path of
the dataset which in turn leads to the node with the matrix on which
biclustering algorithm will be performed.
- getSelectionPath() -
Method in class biggests.gui.PanelFunctionAnalysis
- Returns the dataset tree selected path which corresponds to the path of
the dataset which in turn leads to the node with the matrix on which
biclustering algorithm will be performed.
- getSelectionPath() -
Method in class biggests.gui.PanelPostProcessing
- Rreturns the selected path in the dataset tree.
- getSelectionPath() -
Method in class biggests.gui.PanelPreProcessing
- Returns the path selected on the dataset tree.
- getSetOfBiclusters() -
Method in class biggests.gui.PanelAnalyzingMatrixTables
- Returns the set of biclusters from which the set of tables is constructed.
- getSetOfBiclusters() -
Method in class biggests.gui.PanelExpression
- Returns the set of biclusters retrieved from the group of
biclusters to display.
- getShiftsLabel() -
Method in class biggests.gui.PanelBiclustering
- Returns the label for number of shifts for CCC-Biclustering
and e-CCC-Biclustering algorithms.
- getShiftsTextField() -
Method in class biggests.gui.PanelBiclustering
- Returns the text field for the input of CCC-Biclustering
and e-CCC-Biclustering algorithms number of shifts.
- getSignificantColor() -
Method in class biggests.tables.TableFunctionGroup
- Returns the
Color
used to mark significant terms.
- getSignificantColor() -
Method in class biggests.tables.TableFunctionIndividual
- Returns the
Color
used to mark significant terms.
- getSignificantPValueThreshold() -
Method in class biggests.tables.TableFunctionIndividual
- Returns the p-value threshold for significant gene ontology terms.
- getSimilarityTextField() -
Method in class biggests.gui.PanelPostProcessing
- Returns the similarity threshold input text field.
- getSizeTextField() -
Method in class biggests.gui.PanelPostProcessing
- Returns the size threshold input text field.
- getSmoothCheckBox() -
Method in class biggests.gui.PanelPreProcessing
- Returns smooth check box.
- getSmoothWindowLabel() -
Method in class biggests.gui.PanelPreProcessing
- Returns smooth window label.
- getSmoothWindowTextField() -
Method in class biggests.gui.PanelPreProcessing
- Returns smooth window input text field.
- getSortCheckBox() -
Method in class biggests.gui.PanelPostProcessing
- Returns enabling/disabling sorting option check box.
- getSortCriteria() -
Method in class biggests.gui.PanelPostProcessing
-
- getSortCriteriaLabel() -
Method in class biggests.gui.PanelPostProcessing
- Returns the sorting criteria label.
- getSortCriteriaList() -
Method in class biggests.gui.PanelPostProcessing
- Returns sorting criteria list.
- getSortingStatus(int) -
Method in class biggests.tables.TableSorter
- Returns the sorting status of the given
column
:
DESCENDING
NOT_SORTED
ASCENDING
- getSortPanel() -
Method in class biggests.gui.PanelPostProcessing
- Returns the panel with the sorting options.
- getSplitLeftRight() -
Method in class biggests.gui.BiggestsFrame
- Returns the left-right split pane.
- getSplitTopBottom() -
Method in class biggests.gui.BiggestsFrame
- Returns the top-bottom split pane.
- getSpringLayout() -
Method in class biggests.gui.PanelBiclustering
- Returns the layout of this panel.
- getSpringLayout() -
Method in class biggests.gui.PanelPreProcessing
- Returns the layout of this panel.
- getStop() -
Static method in class biggests.gui.BiggestsIO
- Returns the value of stop flag.
- getString() -
Method in class biggests.utils.ProgressBarFrame
- Returns the message displayed by the progress bar.
- getSvgGraph() -
Method in class biggests.gui.PanelAnalyzingFunctionSignificanceGraph
- Returns the swing-based component which holds the svg graph.
- getTabbedPane() -
Method in class biggests.gui.BiggestsFrame
- Returns the main tabbed pane.
- getTabbedPaneAnalyzing() -
Method in class biggests.gui.BiggestsFrame
- Returns the analysis tabbed pane.
- getTabbedPaneAnalyzingExpression() -
Method in class biggests.gui.BiggestsFrame
- Returns the expression analysis tabbed pane.
- getTabbedPaneAnalyzingFunction() -
Method in class biggests.gui.BiggestsFrame
- Returns the function analysis tabbed pane.
- getTabbedPaneAnalyzingMatrix() -
Method in class biggests.gui.BiggestsFrame
- Returns the matrix analysis tabbed pane.
- getTableHeader() -
Method in class biggests.tables.TableSorter
- Returns the table header.
- getTableModel() -
Method in class biggests.tables.TableSorter
- Returns the table model.
- getTables() -
Method in class biggests.gui.PanelAnalyzingMatrixTables
- Returns the array which contains the tables to be displayed
(may contain
TableValues
s, TableColors
s
and TableSymbols
s, depending on the tableType
).
- getTableType() -
Method in class biggests.gui.PanelAnalyzingMatrixTables
- Returns the type of the tables presented in the panel.
- getTextPaneInfo() -
Method in class biggests.gui.BiggestsFrame
- Returns the information text pane, which displays informations about the
selected datasets, matrices or biclusters in the tree.
- getToolTipText(MouseEvent) -
Method in class biggests.tables.TableColorsWithMissingValues
- Overrides
TableValues
's getToolTipText
method
in order to allow the renderer's tips to be used if they have text set.
- getToolTipText(MouseEvent) -
Method in class biggests.tables.TableFunctionGroup
- Overrides
JTable
's getToolTipText
method
in order to allow the renderer's tips to be used if they have text set.
- getToolTipText(MouseEvent) -
Method in class biggests.tables.TableFunctionIndividual
- Overrides
JTable
's getToolTipText
method
in order to allow the renderer's tips to be used if they have text set.
- getToolTipText(MouseEvent) -
Method in class biggests.tables.TableHeader
- Overrides
JTableHeader
's getToolTipText method.
- getToolTipText(MouseEvent) -
Method in class biggests.tables.TableHeaderFunction
- Overrides
JTableHeader
's getToolTipText method.
- getToolTipText(MouseEvent) -
Method in class biggests.tables.TableValues
- Overrides
JTable
's getToolTipText
method
in order to allow the renderer's tips to be used if they have text set.
- getToolTipText(MouseEvent) -
Method in class biggests.tables.TableValuesWithMissingValues
- Overrides
TableValues
's getToolTipText
method
in order to allow the renderer's tips to be used if they have text set.
- getTree() -
Method in class biggests.gui.BiggestsFrame
- Returns the dataset tree object.
- getValidFileExtension() -
Method in class biggests.utils.FileFilterDirectory
- Returns this file filter valid file extension.
- getValidFileExtension() -
Method in class biggests.utils.FileFilterExtension
- Returns this file filter valid file extension.
- getValueAt(int, int) -
Method in class biggests.tables.TableSorter
- Returns the element in the cell at
row
and
column
indexes.
- getVisualizationOption() -
Method in class biggests.gui.PanelExpression
- Returns visualization options (number of biclusters to be displayed) to
include in a combo box when the expression type is either
BICLUSTER_TIME_POINTS or PATTERN and the corresponding object is a
group of biclusters.
- getZoom() -
Method in class biggests.gui.PanelAnalyzingFunctionSignificanceGraph
- Returns the current zoom scale factor.
- getZoomSlider() -
Method in class biggests.gui.PanelAnalyzingFunctionSignificanceGraph
- Returns the zoom slider.
- GIF -
Static variable in class biggests.gui.PanelAnalyzingFunctionSignificanceGraph
- GIF image type.
- goFrontEnd -
Variable in class biggests.tables.TableValues
-
- goFrontEndCheckBox_itemStateChanged(ItemEvent) -
Method in class biggests.gui.PanelFunctionAnalysis
-
- goProperties -
Variable in class biggests.tables.TableValues
-
- gunzipFile(File, File) -
Static method in class biggests.gui.BiggestsIO
- Gunzips the input archive.
HierarchicalClustering
object to
perform hierarchical clustering over the set of gene expression
data contained in expressionMatrix
.
HierarchicalClustering
object to
perform hierarchical clustering over the given set of
expression data.
clusteringMethod
, on a given set of gene expression
data, using the distance metric given by distanceMetric
.
InvalidNodeObjectTypeException
.
InvalidDataTypeException
with the given information message.
row
and
column
indexes is editable.
viewIndex
.
NodeInfo
(with all the information about
a certain node, including a pointer for the node object itself.
NodeInfo
(with all the information about
a certain node, including a pointer for the node object itself.
bicluster
.
expressionMatrix
.
bicluster
object.
biclustering
(biclusters' group).
discretizedExpressionMatrix
and options to
perform function analysis.
selectionPath
.
expressionMatrix
.
nodeInfo
matrix object
under all conditions of a specific parentNodeInfo
matrix
object.
PanelAnalyzingFunctionTable
.
JPanel
class with some methods to
perform basic validations over data input by the user.bicluster
.
genesNames
, conditionsNames
and respective
expressionValues
pattern
(sequence of symbols) within
the given alphabet
(set of symbols that can appear
in pattern
).
PanelFunctionAnalysis
.
TableValues
's prepareRenderer
method.
TableColors
's prepareRenderer
method.
JTable
's prepareRenderer
method.
JTable
's prepareRenderer
method.
JTable
's prepareRenderer
method.
TableValues
's prepareRenderer
method.
TableValues
's prepareRenderer
method.
JTable
's prepareRenderer
method.
TableValues
's prepareRenderer
method.
ProgressBarFrame
dialog.
fComponent
so that it can invalidate the layout if the size changes.
parameterToRead
entered by the user and converts
it to a floating point (double
) value.
parameterToRead
entered by the user, converts
it to a floating point value (double
and checks if
the resulting value is in [min
, max
] range.
parameterToRead
entered by the user, converts
it to a floating point value (double
) and checks if
the resulting value is above min
value.
parameterToRead
entered by the user and converts
it to a floating point (float
) value.
parameterToRead
entered by the user, converts
it to a floating point value (float
and checks if
the resulting value is in [min
, max
] range.
parameterToRead
entered by the user, converts
it to a floating point value (float
) and checks if
the resulting value is above min
value.
parameterToRead
entered by the user and converts
it to an integer value.
parameterToRead
entered by the user, converts
it to an integer value and checks if the resulting value is in
[min
, max
] range.
parameterToRead
entered by the user, converts
it to an integer value and checks if the resulting value is above
min
value.
Thread
's run
method.
Thread
's run
method.
Thread
's run
method.
Thread
's run
method.
comparator
for the given objects'
type
.
fLabel
to the given label
string,
updating the orientation as needed and invalidating the layout if
the size changes.
column
.
biclustering
object.
CCC_Biclustering
object.
CC_TSB_Biclustering
object.
E_CCC_Biclustering
object.
DefaultTableCellRenderer
's
setValue
method.
DefaultTableCellRenderer
's
setValue
method.
DefaultTableCellRenderer
's
setValue
method.
row
and
column
) indexes.
tree
based on the
tree's structure.
String
s)String
s)float
values)
A table of colors has a vertical text header and each
of its cells is colored according to the float value that
holds in it.String
s)String
s)float
values)
A table of colors has a vertical text header and each
of its cells is colored according to the float value it
holds.FloatCellRenderer
: A renderer for cells which
contain float numbers.FloatCellRenderer
.
NumberCellRenderer
: A renderer for cells which
contain numbers.NumberCellRenderer
for a cell.
matrix
.
tableSorterModel
.
tableSorterModel
.
FloatCellRenderer
: A renderer for cells which
contain float numbers.FloatCellRenderer
.
NumberCellRenderer
: A renderer for cells which
contain numbers.NumberCellRenderer
for a cell.
JTableHeader
's constructor.
JTableHeader
's constructor.
JTableHeader
's constructor.
JTableHeader
's constructor.
TableSorter
with default mouse and
table model listeners.
TableSorter
with the given table model.
TableSorter
with the given table
model and header.
TableSorterFunctionGroup
model.
TableSorterFunctionGroup
model.
TableSorterFunctionGroup
model.
TableSorterFunctionIndividual
model.
TableSorterFunctionIndividual
model.
TableSorterFunctionIndividual
model.
TableSorterSymbols
model.
TableSorterSymbols
model from a
plain table model.
TableSorterSymbols
model from a plain table
model and a given table header.
TableSorterValues
model.
TableSorterValues
model.
TableSorterValues
model.
TableSorterVerticalHeader
model
Description: This table model implements table sorting and also a table
header model which writes vertical oriented column names.ColorsTableSorter
model.
TableSorterVerticalHeader
model from a
plain table model.
TableSorterVerticalHeader
model from a plain table
model and a given table header.
String
s)String
s)char
acters)
A table of symbols has a vertical text header and each
of its cells is colored according to the symbol that
holds in it.String
s)String
s)char
acters)
A table of symbols has a vertical text header and each
of its cells is colored according to the symbol that
holds in it.String
s)String
s)float
values)
This is a simple table that shows the raw values that
are assigned when using one of the constructors and
implements sorting functionality on the columns, i.e.,
allows the reordering of the rows, sorting them by a
specific column's cells values in ascending or descending
order.FloatCellRenderer
: A renderer for cells which
contain float numbers.FloatCellRenderer
.
NumberCellRenderer
: A renderer for cells which
contain numbers.NumberCellRenderer
for a cell.
String
s)String
s)float
values)
This is a simple table that shows the raw values that
are assigned when using one of the constructors and
implements sorting functionality on the columns, i.e.,
allows the reordering of the rows, sorting them by the
values of a specific column in ascending or descending
order.datasetFileTextField
.
ThreadBiclusteringFunctionAnalysis
ThreadFunctionAnalysis
.
ThreadFunctionAnalysis
.
toString()
method from class Object
.
toString
method.
ROTATE_NONE
ROTATE_LEFT
ROTATE_RIGHT
VerticalTextIcon
for the specified
component
with the specified label
.
VerticalTextIcon
for the specified
component
with the specified label
.
LinkedViewApp
's windowClosed
method.
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