| Package | Description |
|---|---|
| eu.isas.peptideshaker.gui |
GUI dialogs and helper classes.
|
| eu.isas.peptideshaker.gui.export |
GUI export dialogs.
|
| eu.isas.peptideshaker.gui.filtering |
GUI filtering dialogs.
|
| eu.isas.peptideshaker.gui.parameters |
Preferences dialogs.
|
| eu.isas.peptideshaker.gui.pride |
GUI classes for exporting to PRIDE.
|
| eu.isas.peptideshaker.gui.protein_inference |
Protein inference dialogs.
|
| eu.isas.peptideshaker.gui.start |
Getting started dialog.
|
| eu.isas.peptideshaker.gui.tablemodels |
Table models.
|
| eu.isas.peptideshaker.gui.tabpanels |
Main GUI panels.
|
| Constructor and Description |
|---|
FractionDetailsDialog(PeptideShakerGUI peptideShakerGUI,
boolean modal)
Creates a new FractionDetailsDialog.
|
JumpToPanel(PeptideShakerGUI peptideShakerGUI)
Creates a new JumpToPanel.
|
ModificationSiteInferenceDialog(PeptideShakerGUI peptideShakerGUI,
long peptideKey,
com.compomics.util.experiment.biology.modifications.Modification ptm)
Constructor.
|
NewDialog(PeptideShakerGUI peptideShakerGui,
boolean modal)
Creates a new open dialog.
|
NewDialog(WelcomeDialog welcomeDialog,
PeptideShakerGUI peptideShakerGui,
boolean modal)
Creates a new open dialog.
|
SaveDialog(PeptideShakerGUI peptideShakerGUI,
boolean modal)
Create a new SaveDialog.
|
WelcomeDialog(PeptideShakerGUI peptideShakerGUI,
boolean showLowMemoryWarning,
boolean showJavaVersionWarning,
boolean modal)
Create a new WelcomeDialog.
|
| Modifier and Type | Method and Description |
|---|---|
PeptideShakerGUI |
FollowUpExportDialog.getPeptideShakerGUI()
Returns the references to the PeptideShakerGUI.
|
| Constructor and Description |
|---|
FeaturesExportDialog(PeptideShakerGUI peptideShakerGUI)
Creates a new ExportPreferencesDialog.
|
FollowUpExportDialog(PeptideShakerGUI peptideShakerGUI)
Creates a new FollowupPreferencesDialog.
|
MethodsSectionDialog(PeptideShakerGUI peptideShakerGUI,
boolean modal)
Creates a new MethodsSectionDialog.
|
MzIdentMLExportDialog(PeptideShakerGUI peptideShakerGUI,
boolean modal)
Create a new MzIdentMLExportDialog.
|
| Constructor and Description |
|---|
FiltersDialog(PeptideShakerGUI peptideShakerGUI)
Creates a new FiltersDialog.
|
| Constructor and Description |
|---|
ProjectDetailsDialog(PeptideShakerGUI peptideShakerGUI)
Creates a dialog to display the project properties.
|
SpectrumColorsDialog(PeptideShakerGUI peptideShakerGUI)
Creates a new SpectrumColorsDialog.
|
| Modifier and Type | Method and Description |
|---|---|
PeptideShakerGUI |
PrideReshakeGUI.getPeptideShakerGUI()
Returns a reference to the main GUI.
|
| Constructor and Description |
|---|
DatabaseHelpDialog(PeptideShakerGUI peptideShakerGUI,
com.compomics.util.experiment.io.biology.protein.FastaParameters fastaParameters,
com.compomics.util.io.file.LastSelectedFolder lastSelectedFolder,
boolean modal,
String species)
Creates a new DatabaseHelpDialog.
|
PrideReshakeGUI(PeptideShakerGUI peptideShakerGUI)
Creates a new PrideReShakeGUI frame.
|
PrideReshakeGUI(PeptideShakerGUI peptideShakerGUI,
String pxAccession,
boolean privateData)
Creates a new PrideReShakeGUI frame.
|
| Constructor and Description |
|---|
ProteinInferenceDialog(PeptideShakerGUI peptideShakerGUI,
com.compomics.util.experiment.biology.genes.GeneMaps geneMaps,
long matchKey,
com.compomics.util.experiment.identification.Identification identification)
Creates new form ProteinInferenceDialog.
|
ProteinInferencePeptideLevelDialog(PeptideShakerGUI peptideShakerGUI,
boolean modal,
long peptideMatchKey,
Long proteinMatchKey,
com.compomics.util.experiment.biology.genes.GeneMaps geneMaps)
Create a new ProteinInferencePeptideLevelDialog.
|
| Constructor and Description |
|---|
GettingStartedDialog(PeptideShakerGUI peptideShakerGUI,
WelcomeDialog welcomeDialog,
boolean modal)
Creates a new GettingStartedDialog.
|
| Modifier and Type | Method and Description |
|---|---|
void |
ProteinFractionTableModel.updateDataModel(PeptideShakerGUI peptideShakerGUI)
Update the data in the table model without having to reset the whole
table model.
|
| Constructor and Description |
|---|
ProteinFractionTableModel(PeptideShakerGUI peptideShakerGUI)
Constructor which sets a new table.
|
| Constructor and Description |
|---|
AnnotationPanel(PeptideShakerGUI peptideShakerGUI)
Creates a new AnnotationPanel.
|
GOEAPanel(PeptideShakerGUI peptideShakerGUI)
Creates a new GOEAPanel.
|
ModificationsPanel(PeptideShakerGUI peptideShakerGUI)
Creates a new Modifications tab.
|
OverviewPanel(PeptideShakerGUI parent)
Creates a new OverviewPanel.
|
ProteinFractionsPanel(PeptideShakerGUI peptideShakerGUI)
Creates a new ProteinFractionsPanel.
|
ProteinStructurePanel(PeptideShakerGUI peptideShakerGUI)
Creates a new ProteinPanel.
|
QCPanel(PeptideShakerGUI parent)
Creates a new QCPanel.
|
SpectrumIdentificationPanel(PeptideShakerGUI peptideShakerGUI)
Create a new SpectrumIdentificationPanel.
|
ValidationPanel(PeptideShakerGUI parent)
Create a new StatsPanel.
|
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