A B C D F G H I K M N O P R S T U

A

accept(File) - Method in class kea.programs.jPrimrose.ProjectFileFilter
Method used by JFileChooser object.
addHelpMenuAction(AbstractAction) - Method in class kea.programs.jPrimrose.ChooseTargetDialog
Use this method to add menu items (Actions) to the help menu.
addHelpMenuAction(AbstractAction) - Method in class kea.programs.jPrimrose.FindOligosDialog
Use this method to add menu items (Actions) to the help menu.
addHelpMenuAction(Action) - Method in class kea.programs.jPrimrose.Report
Use this method to add menu items (Actions) to the help menu.
addHelpMenuAction(Action) - Method in class kea.programs.jPrimrose.SearchDatabaseDialog
Use this method to add menu items (Actions) to the help menu.
addHelpMenuAction(AbstractAction) - Method in class kea.programs.jPrimrose.SimpleChooseTargetDialog
Use this method to add menu items (Actions) to the help menu.
addOligoCollection(OligoCollection) - Method in class kea.programs.jPrimrose.PrimroseOligoDatabase
Adds an OligoCollection object to database.
addOligoSearchResult(OligoSearchResult) - Method in class kea.programs.jPrimrose.OligoSearchResultCollection
Add OligoSearchResult object to collection.
addSearchOutcome(Record, SearchOutcome) - Method in class kea.programs.jPrimrose.PrimroseOligo
Store Record object and corresponding SearchOutcome.
addSearchResult(Record, SearchResult) - Method in class kea.programs.jPrimrose.OligoSearchResult
Stores search result for specified Record object.
addSequenceLength(Record, int) - Method in class kea.programs.jPrimrose.PrimroseOligo
Stores sequence length of record object for display purposes.
addTarget(Target) - Method in class kea.programs.jPrimrose.TargetCollection
Adds target to collection.
AUTHOR_NAME - Static variable in class kea.programs.jPrimrose.Info
Name of author.

B

BooleanTableCellEditor - Class in kea.programs.jPrimrose
 
BooleanTableCellEditor() - Constructor for class kea.programs.jPrimrose.BooleanTableCellEditor
Creates a new instance of BooleanTableCellEditor.
BooleanTableCellRenderer - Class in kea.programs.jPrimrose
TableCellRender for Boolean objects.
BooleanTableCellRenderer() - Constructor for class kea.programs.jPrimrose.BooleanTableCellRenderer
Creates a new instance of class.

C

CHECKBOX_COLUMN - Static variable in class kea.programs.jPrimrose.FindOligosDialogTableModel
 
ChooseTargetDialog - Class in kea.programs.jPrimrose
Dialog box for choosing target group.
ChooseTargetDialog(MainClass, Database) - Constructor for class kea.programs.jPrimrose.ChooseTargetDialog
Creates a new instance of ChooseTargetDialog.
ChooseTargetDialogTableCellRenderer - Class in kea.programs.jPrimrose
TableCellRender for ChooseTargetDialog class.
ChooseTargetDialogTableCellRenderer() - Constructor for class kea.programs.jPrimrose.ChooseTargetDialogTableCellRenderer
Creates a new instance of class.
ChooseTargetDialogTreeCellRenderer - Class in kea.programs.jPrimrose
Supplies customised tree icons and colour scheme for ChooseTargetDialog.
ChooseTargetDialogTreeCellRenderer() - Constructor for class kea.programs.jPrimrose.ChooseTargetDialogTreeCellRenderer
Creates a new instance of class.
clear() - Method in class kea.programs.jPrimrose.ReportGraphTableDialog
Clear display.
clear() - Method in class kea.programs.jPrimrose.SearchDatabaseDialogTableModel
 
clone(Target) - Static method in class kea.programs.jPrimrose.Target
Clones supplied Target object.
CODE_COLUMN - Static variable in class kea.programs.jPrimrose.FindOligosDialogTableModel
 

D

DEFAULT_SHOW_TOOLTIPS - Static variable in class kea.programs.jPrimrose.Info
Decides whether tooltips should be shown or not.

F

FindOligoDialogTableCellRenderer - Class in kea.programs.jPrimrose
TableCellRender for FindOligoDialog class.
FindOligoDialogTableCellRenderer() - Constructor for class kea.programs.jPrimrose.FindOligoDialogTableCellRenderer
Creates a new instance of class.
FindOligosDialog - Class in kea.programs.jPrimrose
Dialog for designing oligos.
FindOligosDialog(JFrame, Database, TargetCollection, PrimroseOligoDatabase, OligoDesignInfo, Action) - Constructor for class kea.programs.jPrimrose.FindOligosDialog
Creates a new instance of FindOligosDialog.
FindOligosDialogTableModel - Class in kea.programs.jPrimrose
Table model for FindOligosDialog dialog box.
FindOligosDialogTableModel(TargetCollection) - Constructor for class kea.programs.jPrimrose.FindOligosDialogTableModel
Creates a new instance of class.
fireOnTreeNodeSelectionToggle(Record) - Method in class kea.programs.jPrimrose.ChooseTargetDialog
Inherited method - updates table when method called.
FloatTableCellRenderer - Class in kea.programs.jPrimrose
TableCellRender for Float objects.
FloatTableCellRenderer() - Constructor for class kea.programs.jPrimrose.FloatTableCellRenderer
Creates a new instance of class.

G

getColumnClass(int) - Method in class kea.programs.jPrimrose.FindOligosDialogTableModel
Overridden AbstractTableModel method.
getColumnClass(int) - Method in class kea.programs.jPrimrose.ReportGraphTableModel
Overridden AbstractTableModel method.
getColumnClass(int) - Method in class kea.programs.jPrimrose.SearchDatabaseDialogTableModel
Overridden AbstractTableModel method.
getColumnCount() - Method in class kea.programs.jPrimrose.FindOligosDialogTableModel
Implementation of AbstractTableModel method.
getColumnCount() - Method in class kea.programs.jPrimrose.ReportGraphTableModel
Implementation of AbstractTableModel method.
getColumnCount() - Method in class kea.programs.jPrimrose.SearchDatabaseDialogTableModel
Implementation of AbstractTableModel method.
getColumnName(int) - Method in class kea.programs.jPrimrose.FindOligosDialogTableModel
Overridden AbstractTableModel method.
getColumnName(int) - Method in class kea.programs.jPrimrose.ReportGraphTableModel
Overridden AbstractTableModel method.
getColumnName(int) - Method in class kea.programs.jPrimrose.SearchDatabaseDialogTableModel
Overridden AbstractTableModel method.
getDegeneracy() - Method in class kea.programs.jPrimrose.OligoSearchResult
Returns the number of degenerate bases within the oligo sequence associated with this object.
getDegeneracy() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns the number of degenerate bases within the oligo sequence associated with this object.
getDescription() - Method in class kea.programs.jPrimrose.ProjectFileFilter
Gets description for file filter.
getEndPosition(Record) - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns end position of oligo within specified Record object.
getExtension() - Method in class kea.programs.jPrimrose.ProjectFileFilter
Gets extension for files.
getHits() - Method in class kea.programs.jPrimrose.OligoSearchResult
Returns the total number of database hits (target and non-target).
getHits() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns the total number of database hits (target and non-target).
getMatcher() - Method in class kea.programs.jPrimrose.PrimroseOligo
 
getMatcher(CharSequence) - Method in class kea.programs.jPrimrose.PrimroseOligo
 
getMaximumDegeneracy() - Method in class kea.programs.jPrimrose.OligoDesignInfo
Returns the maximum number of degenerate bases allowed, as specified by the user.
getMeltingTemperature(TmCalculatorType) - Method in class kea.programs.jPrimrose.OligoSearchResult
Returns melting temperature of oligo, calculated according to equation indicated by supplied argument.
getMeltingTemperature(TmCalculatorType) - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns melting temperature of oligo, calculated according to equation indicated by supplied argument.
getNonTargetHits() - Method in class kea.programs.jPrimrose.OligoSearchResult
Returns total number of non-target hits.
getNonTargetHits() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns total number of non-target hits.
getNonTargetRecords() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns all non-target Record objects encountered by oligo during search.
getNumberOfCollections() - Method in class kea.programs.jPrimrose.PrimroseOligoDatabase
Returns number of OligoCollections in database.
getNumberOfOligos(int) - Method in class kea.programs.jPrimrose.PrimroseOligoDatabase
Returns number of Oligo objects within a specified Oligo collection.
getNumberOfSelfComplementaryBases() - Method in class kea.programs.jPrimrose.OligoSearchResult
Returns the number of self complementary bases within the oligonucleotide.
getNumberOfSelfComplementaryBases() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns the number of self complementary bases within the oligonucleotide.
getNumberSelected() - Method in class kea.programs.jPrimrose.TargetCollection
Returns number of selected targets within collection.
getOligo() - Method in class kea.programs.jPrimrose.OligoSearchResult
Returns Oligo object.
getOligoCollection(int) - Method in class kea.programs.jPrimrose.PrimroseOligoDatabase
Returns OligoCollection object corresponding to index number.
getOligoDatabase() - Method in class kea.programs.jPrimrose.FindOligosDialog
Returns OligoDatabase object containing separate OligoCollection objects.
getOligoDesignInfo() - Method in class kea.programs.jPrimrose.FindOligosDialog
Returns user defined oligo design info for display later in program.
getOligoLength() - Method in class kea.programs.jPrimrose.OligoDesignInfo
Returns the oligonucleotide length specified by the user.
getOligos() - Method in class kea.programs.jPrimrose.PrimroseOligoDatabase
Returns an array of all Oligo objects stored in database.
getOligoSearchResult(Oligo) - Method in class kea.programs.jPrimrose.OligoSearchResultCollection
Returns OligoSearchResult object corresponding to Oligo object supplied.
getOligoSearchResult(int) - Method in class kea.programs.jPrimrose.OligoSearchResultCollection
Returns OligoSearchResult object corresponding to index number supplied.
getOligoSearchResults() - Method in class kea.programs.jPrimrose.OligoSearchResultCollection
Returns array of oligo search result objects.
getOrientation() - Method in class kea.programs.jPrimrose.PrimroseOligo
 
getPattern() - Method in class kea.programs.jPrimrose.PrimroseOligo
 
getPercentGCContent() - Method in class kea.programs.jPrimrose.OligoSearchResult
Returns the percentage GC content of the oligo.
getPercentGCContent() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns the percentage GC content of the oligo.
getPercentNonTargetHits() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns percentage of non-target records hit.
getPercentTargetHits() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns percentage of target records hit.
getRecord() - Method in class kea.programs.jPrimrose.Target
Returns target record.
getRecords() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns all Record objects encountered by oligo during search.
getRowCount() - Method in class kea.programs.jPrimrose.FindOligosDialogTableModel
Implementaion of AbstractTableModel method.
getRowCount() - Method in class kea.programs.jPrimrose.ReportGraphTableModel
Implementaion of AbstractTableModel method.
getRowCount() - Method in class kea.programs.jPrimrose.SearchDatabaseDialogTableModel
Implementaion of AbstractTableModel method.
getSearchResult(Record) - Method in class kea.programs.jPrimrose.OligoSearchResult
Returns SearchResult corresponding to specified Record object.
getSearchResult(Record) - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns search result corresponding to Record object supplied.
getSelectedTargets() - Method in class kea.programs.jPrimrose.TargetCollection
Returns array of all target objects that are selected.
getSequence() - Method in class kea.programs.jPrimrose.PrimroseOligo
 
getSequenceLength(Record) - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns sequence length of supplied record object.
getSize() - Method in class kea.programs.jPrimrose.OligoSearchResultCollection
Returns size of collection.
getSize() - Method in class kea.programs.jPrimrose.TargetCollection
Returns number of Target objects in collection.
getStartPosition(Record) - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns start position of oligo within specified Record object.
getTableCellRendererComponent(JTable, Object, boolean, boolean, int, int) - Method in class kea.programs.jPrimrose.BooleanTableCellRenderer
Overridden DefaultTableCellRenderer method.
getTableCellRendererComponent(JTable, Object, boolean, boolean, int, int) - Method in class kea.programs.jPrimrose.ChooseTargetDialogTableCellRenderer
Overridden DefaultTableCellRenderer method.
getTableCellRendererComponent(JTable, Object, boolean, boolean, int, int) - Method in class kea.programs.jPrimrose.FindOligoDialogTableCellRenderer
Overridden DefaultTableCellRenderer method.
getTableCellRendererComponent(JTable, Object, boolean, boolean, int, int) - Method in class kea.programs.jPrimrose.FloatTableCellRenderer
Overridden DefaultTableCellRenderer method.
getTableCellRendererComponent(JTable, Object, boolean, boolean, int, int) - Method in class kea.programs.jPrimrose.IntegerTableCellRenderer
Overridden DefaultTableCellRenderer method.
getTableCellRendererComponent(JTable, Object, boolean, boolean, int, int) - Method in class kea.programs.jPrimrose.PrimroseOligoTableCellRenderer
Overridden DefaultTableCellRenderer method.
getTableCellRendererComponent(JTable, Object, boolean, boolean, int, int) - Method in class kea.programs.jPrimrose.PrimroseTableCellRenderer
Overridden DefaultTableCellRenderer method.
getTarget(Record) - Method in class kea.programs.jPrimrose.TargetCollection
Returns Target object corresponding to supplied Record.
getTarget(int) - Method in class kea.programs.jPrimrose.TargetCollection
Returns target at position specified.
getTargetCollection() - Method in class kea.programs.jPrimrose.FindOligosDialog
Returns collection of target objects, with those selected for use in oligo design noted.
getTargetHits() - Method in class kea.programs.jPrimrose.OligoSearchResult
Returns total number of target hits.
getTargetHits() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns total number of target hits.
getTargetRecords() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns all target Record objects encountered by oligo during search.
getTotalNumberOfOligos() - Method in class kea.programs.jPrimrose.PrimroseOligoDatabase
Returns total number of oligo objects in database (the sum of all OligoCollection sizes).
getTotalOligos() - Method in class kea.programs.jPrimrose.OligoDesignInfo
Returns total number of oligos identified by program.
getTreeCellRendererComponent(JTree, Object, boolean, boolean, boolean, int, boolean) - Method in class kea.programs.jPrimrose.ChooseTargetDialogTreeCellRenderer
Overriden base method.
getValueAt(int, int) - Method in class kea.programs.jPrimrose.FindOligosDialogTableModel
Implementation of AstractTableModel method.
getValueAt(int, int) - Method in class kea.programs.jPrimrose.ReportGraphTableModel
Implementation of AstractTableModel method.
getValueAt(int, int) - Method in class kea.programs.jPrimrose.SearchDatabaseDialogTableModel
Implementation of AstractTableModel method.

H

hasFailed() - Method in class kea.programs.jPrimrose.OligoSearchResult
Returns true if search has failed (exceeded non-target record limit).
hasFailed() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns true if search has failed (exceeded non-target record limit).

I

incrementScore(Record, SearchResult) - Method in class kea.programs.jPrimrose.PrimroseOligo
Scores search result (target/non-target) according specified Record object.
Info - Class in kea.programs.jPrimrose
Information class for JPrimrose.
IntegerTableCellRenderer - Class in kea.programs.jPrimrose
TableCellRender for Integer objects.
IntegerTableCellRenderer() - Constructor for class kea.programs.jPrimrose.IntegerTableCellRenderer
Creates a new instance of class.
isCellEditable(int, int) - Method in class kea.programs.jPrimrose.FindOligosDialogTableModel
Overrides method to ensure checkbox column is editable.
isSelected() - Method in class kea.programs.jPrimrose.Target
Returns true if target record is to be used in oligonucleotide generation.

K

kea.programs.jPrimrose - package kea.programs.jPrimrose
 

M

main(String[]) - Static method in class kea.programs.jPrimrose.MainClass
Entry point for program.
MainClass - Class in kea.programs.jPrimrose
Main class for JPrimrose program.
MainClass() - Constructor for class kea.programs.jPrimrose.MainClass
Creates a new instance of MainClass.

N

NAME_COLUMN - Static variable in class kea.programs.jPrimrose.FindOligosDialogTableModel
 
NULL_DATA - Static variable in class kea.programs.jPrimrose.ReportGraphTableModel
Null data for displaying in table.
NUMBER_COLUMN - Static variable in class kea.programs.jPrimrose.FindOligosDialogTableModel
 

O

OligoDesignInfo - Class in kea.programs.jPrimrose
Simple class for storing oligo design information (generated by FindOligosDialog for display by SearchDatabaseDialog.)
OligoDesignInfo(int, int, int) - Constructor for class kea.programs.jPrimrose.OligoDesignInfo
Creates a new instance of OligoDesignInfo.
OligoSearchResult - Class in kea.programs.jPrimrose
Stores outcome of database search with specified oligonucleotide.
OligoSearchResult(Oligo) - Constructor for class kea.programs.jPrimrose.OligoSearchResult
Creates a new instance of OligoSearchResult.
OligoSearchResultCollection - Class in kea.programs.jPrimrose
Collection of OligoSearchResult objects, generated by SearchDatabase.
OligoSearchResultCollection() - Constructor for class kea.programs.jPrimrose.OligoSearchResultCollection
Creates a new instance of OligoSearchResultCollection.

P

PrimroseOligo - Class in kea.programs.jPrimrose
Implementation of Oligo interface.
PrimroseOligo(String, Orientation) - Constructor for class kea.programs.jPrimrose.PrimroseOligo
Creates a new instance of PrimroseOligo.
PrimroseOligoDatabase - Class in kea.programs.jPrimrose
Stores OligoCollection objects.
PrimroseOligoDatabase() - Constructor for class kea.programs.jPrimrose.PrimroseOligoDatabase
Creates a new instance of PrimroseOligoDatabase.
PrimroseOligoTableCellRenderer - Class in kea.programs.jPrimrose
TableCellRender for PrimroseOligo objects.
PrimroseOligoTableCellRenderer() - Constructor for class kea.programs.jPrimrose.PrimroseOligoTableCellRenderer
Creates a new instance of class.
PrimroseTableCellRenderer - Class in kea.programs.jPrimrose
Default TableCellRenderer for Primrose tables.
PrimroseTableCellRenderer() - Constructor for class kea.programs.jPrimrose.PrimroseTableCellRenderer
Creates a new instance of class.
processWindowEvent(WindowEvent) - Method in class kea.programs.jPrimrose.MainClass
Overrides base class method if the WINDOW_CLOSING window event is fired.
processWindowEvent(WindowEvent) - Method in class kea.programs.jPrimrose.Report
Overrides base class method if the WINDOW_CLOSING window event is fired.
processWindowEvent(WindowEvent) - Method in class kea.programs.jPrimrose.SearchDatabaseDialog
Overrides base class method if the WINDOW_CLOSING window event is fired.
PROGRAM_DESCRIPTION - Static variable in class kea.programs.jPrimrose.Info
Short description of program.
PROGRAM_NAME - Static variable in class kea.programs.jPrimrose.Info
Public name of program.
PROGRAM_VERSION - Static variable in class kea.programs.jPrimrose.Info
Version of program.
ProjectFileFilter - Class in kea.programs.jPrimrose
File filter for project files.
ProjectFileFilter() - Constructor for class kea.programs.jPrimrose.ProjectFileFilter
Creates a new instance of class.

R

Report - Class in kea.programs.jPrimrose
Oligo search report.
Report(Frame, PrimroseOligo, Database) - Constructor for class kea.programs.jPrimrose.Report
Creates a new instance of Report.
Report(Dialog, PrimroseOligo, Database) - Constructor for class kea.programs.jPrimrose.Report
Creates a new instance of Report.
ReportGraphTableDialog - Class in kea.programs.jPrimrose
Table dialog for displaying graph data.
ReportGraphTableDialog(JDialog, boolean) - Constructor for class kea.programs.jPrimrose.ReportGraphTableDialog
Create new instance of class.
ReportGraphTableDialog(JFrame, boolean) - Constructor for class kea.programs.jPrimrose.ReportGraphTableDialog
Create new instance of class.
ReportGraphTableModel - Class in kea.programs.jPrimrose
Table model for report graph-table.
ReportGraphTableModel() - Constructor for class kea.programs.jPrimrose.ReportGraphTableModel
Creates a new instance of class.
reset() - Method in class kea.programs.jPrimrose.PrimroseOligo
Resets object - empties all storage.
run() - Method in class kea.programs.jPrimrose.SearchDatabase
Runs search, generating a collection of OligoSearchResult objects.
run() - Method in class kea.programs.jPrimrose.SearchDatabase2
Runs search, generating a collection of OligoSearchResult objects.

S

searchComplete() - Method in class kea.programs.jPrimrose.PrimroseOligo
Returns true if search completed, and therefore record information available for display.
SearchDatabase - Class in kea.programs.jPrimrose
Searches database with supplied oligonucleotides.
SearchDatabase(Window, Database, PrimroseOligo[], ProgressComponent, int, AbortListener) - Constructor for class kea.programs.jPrimrose.SearchDatabase
Creates a new instance of SearchDatabase.
SearchDatabase(Window, Database, PrimroseOligo[], ProgressComponent, JLabel, int, AbortListener) - Constructor for class kea.programs.jPrimrose.SearchDatabase
Creates a new instance of SearchDatabase.
SearchDatabase2 - Class in kea.programs.jPrimrose
Searches database with supplied oligonucleotides.
SearchDatabase2(Window, Database, PrimroseOligo, ProgressComponent, SearchResult, AbortListener) - Constructor for class kea.programs.jPrimrose.SearchDatabase2
Creates a new instance of SearchDatabase.
SearchDatabaseDialog - Class in kea.programs.jPrimrose
Dialog for searching database with identified oligos.
SearchDatabaseDialog(JFrame, Database, PrimroseOligoDatabase, TargetCollection, OligoDesignInfo, Action) - Constructor for class kea.programs.jPrimrose.SearchDatabaseDialog
Creates a new instance of SearchDatabaseDialog.
SearchDatabaseDialogTableModel - Class in kea.programs.jPrimrose
Table model for SearchDatabaseDialog dialog box.
SearchDatabaseDialogTableModel(PrimroseOligo[]) - Constructor for class kea.programs.jPrimrose.SearchDatabaseDialogTableModel
Creates a new instance of class.
setColumnWidths(JTable) - Method in class kea.programs.jPrimrose.ReportGraphTableModel
Sets widths of columns.
setFailed(boolean) - Method in class kea.programs.jPrimrose.OligoSearchResult
Records whether search has failed (exceeded non-target record limit).
setFailed(boolean) - Method in class kea.programs.jPrimrose.PrimroseOligo
Records whether search has failed (exceeded non-target record limit).
setSearchComplete(boolean) - Method in class kea.programs.jPrimrose.PrimroseOligo
Sets 'search complete' status for object.
showDatabaseDialog() - Method in class kea.programs.jPrimrose.ChooseTargetDialog
Displays database dialog.
showDialog() - Method in class kea.programs.jPrimrose.FindOligosDialog
Displays dialog.
showDialog() - Method in class kea.programs.jPrimrose.Report
Displays dialog box.
showDialog() - Method in class kea.programs.jPrimrose.SearchDatabaseDialog
Displays dialog.
showDialog() - Method in class kea.programs.jPrimrose.SimpleChooseTargetDialog
Displays dialog.
SimpleChooseTargetDialog - Class in kea.programs.jPrimrose
Dialog box for selecting target records.
SimpleChooseTargetDialog(JFrame, Database, Action) - Constructor for class kea.programs.jPrimrose.SimpleChooseTargetDialog
Creates a new instance of class.
SOURCE_COLUMN - Static variable in class kea.programs.jPrimrose.FindOligosDialogTableModel
 
SPLASH_SCREEN_DIMENSION - Static variable in class kea.programs.jPrimrose.Info
Dimensions of splash screen.
SPLASH_SCREEN_DURATION - Static variable in class kea.programs.jPrimrose.Info
Time (in seconds) that splash screen should be displayed prior to program start.

T

Target - Class in kea.programs.jPrimrose
Simple class for holding target record and associated information, for use with FindOligosDialog.
Target(Record, boolean) - Constructor for class kea.programs.jPrimrose.Target
Creates a new instance of Target.
TargetCollection - Class in kea.programs.jPrimrose
Stores target objects.
TargetCollection() - Constructor for class kea.programs.jPrimrose.TargetCollection
Creates a new instance of TargetCollection.
TEXT_FIELD_FONT - Static variable in class kea.programs.jPrimrose.Info
Font used by text fields.
toggleSelection() - Method in class kea.programs.jPrimrose.Target
Toggles selection status of target.
toString() - Method in class kea.programs.jPrimrose.PrimroseOligo
 
toString() - Method in class kea.programs.jPrimrose.Target
Returns string representation of object.

U

update(CoordinateCollection[]) - Method in class kea.programs.jPrimrose.ReportGraphTableDialog
Update display.
updateModel(CoordinateCollection[]) - Method in class kea.programs.jPrimrose.ReportGraphTableModel
Update model with new data for display.
updateModel(PrimroseOligo[]) - Method in class kea.programs.jPrimrose.SearchDatabaseDialogTableModel
Update model with new Record object.

A B C D F G H I K M N O P R S T U