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| Interface Summary | |
|---|---|
| Directions | Currently only used by SeqAlignPanel so putting in detail windows package, if other classes use then should be moved, could probably be declared in SeqAlignPanel itself |
| ReferenceFactoryI | |
| RegionSelectableI | |
| TierFactoryI | |
| TierI | A Tier is a container class that holds a set of non overlapping SeqFeatureI's. |
| TierPanelI | |
| Class Summary | |
|---|---|
| AbstractScrollablePanel | |
| AbstractTierPanel | |
| AminoAcidRendererOLD | |
| AnnotationEditorMouseListener | Class to handle mouse interactions for an annotation panel NOTE: It can be hard to keep track of what coordinate system you are working in. |
| AnnotationFeatureComparator | |
| AnnotationRighClickMenu | This is the popup menu that gets displayed when you right click on an annotation. |
| BaseEditorPanel | |
| BaseFineEditor | |
| BaseFineEditorHorizontalColHeader | Draws the horizontal header at the top of the EDE which displays the base number which is currently in view. |
| BaseFineEditorRowHeader | |
| BaseRendererFactory | |
| CompactFeaturePlaceFinder | This class encapsulates a 'compact' place finding algorithm. |
| DefaultBaseRenderer | |
| FeaturePlaceFinder | |
| FindDialog | |
| GoToDialog | |
| HorizontalScrollBarAdjustmentListener | |
| MultiSequenceAlignerFrame | |
| MultiSequenceAlignerPanel | |
| MultiTierPanel | |
| MultiTierPanelHeaderTable | Need to figure out how to integrate mouse selection. |
| PanelFactory | |
| ReferenceFactory | |
| ReferenceTierPanelHeader | |
| ResultFeatureComparator | |
| ResultMouseListener | |
| ResultRenderer | |
| ResultRightClickMenu | This is the popup menu that gets displayed when you right click on an result. |
| SelectableDNARenderer | |
| SemiCompactFeaturePlaceFinder | This class encapsulates a 'semi compact' place finding algorithm. |
| SeqAlignPanel | Generates a scrollable base level display for sequences. |
| SeqFeatureTableModel | |
| Tier | A Tier is a container class that holds a set of non overlapping SeqFeatureI's. |
| TierFactory | |
| TierPanel | A Tier Panel is a JPanel which is used to render a TierI. |
| TierPanelAddressHeader | Draws the horizontal header which displays the base number that is currently in view. |
| Utils | |
| VerticalScrollBarAdjustmentListener | |
| ViewportChangeListener | |
| Enum Summary | |
|---|---|
| FeaturePlaceFinder.Type | |
| Orientation | |
| ReadingFrame | |
| SeqFeatureTableModel.ColumnTypes | |
| SequenceType | |
| Strand | |
| TierI.Level | |
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