Uses of Interface
org.biojava.bio.gui.sequence.SequenceRenderer

Packages that use SequenceRenderer

Package	Description
org.biojava.bio.gui.sequence	Graphical displays of biological sequences and associated annotations.

Uses of SequenceRenderer in org.biojava.bio.gui.sequence

Classes in org.biojava.bio.gui.sequence that implement SequenceRenderer

Modifier and Type	Class and Description
class	AbiTraceRenderer Renders an ABI trace file as a chromatogram graph.
class	AbstractPeptideDigestRenderer A SequenceRenderer that renders a set of Features that match a FeatureFilter in such a way that they do not overlap in the display.
class	AlignmentRenderer
class	BumpedRenderer
class	FeatureBlockSequenceRenderer FeatureBlockSequenceRenderer forms a bridge between Sequence rendering and Feature rendering.
class	FilteringRenderer
class	GappedRenderer A renderer that will display a gapped sequence as a discontinuous series of regions.
class	GlyphFeatureRenderer A FeatureRenderer that renders a particular Glyph for Features accepted by a particular FeatureFilter
class	LabelledSequenceRenderer Renderer which draws a track of sequence with a textual label.
class	MultiLineRenderer MultiLineRenderer is a SequenceRenderer which collects a number of other SequenceRenderers each of which render their own view of a Sequence.
class	OffsetRulerRenderer OffsetRulerRenderer can render the ruler starting from an arbitrary offset from the sequence.
class	OverlayRendererWrapper This class wraps SequenceRenderer classes to present an Overlay Marker interface that will indicate to LayeredRenderer that subsequent renderers should overdraw the same space as the wrapped renderer.
class	PaddingRenderer A renderer that adds padding before and after a delegate renderer.
class	PeptideDigestRenderer A concrete AbstractPeptideDigestRenderer.
class	RulerRenderer RulerRenderer renders numerical scales in sequence coordinates.
class	SecondaryStructureFeatureRenderer A GlyphRenderer subclass that specificatlly handles Features pertaining to Secondary Structure (Helices, Turns and Strands).
class	SequenceRendererWrapper An implementation of SequenceRenderer that delegates rendering to another renderer.
class	SixFrameRenderer Class that handles drawing in six frames for other classes.
class	StopRenderer Compute sites of stop codons.
class	SymbolSequenceRenderer SymbolSequenceRenderer renders symbols of a SymbolList.

Methods in org.biojava.bio.gui.sequence that return SequenceRenderer

Modifier and Type	Method and Description
SequenceRenderer	TranslatedSequencePanel.getRenderer() getRenderer returns the current SequenceRenderer.
SequenceRenderer	SequenceRendererWrapper.getRenderer()
SequenceRenderer	SequencePanelWrapper.getRenderer()
SequenceRenderer	OverlayRendererWrapper.getRenderer()

Methods in org.biojava.bio.gui.sequence with parameters of type SequenceRenderer

Modifier and Type	Method and Description
protected void	MultiLineRenderer._addRenderer(SequenceRenderer renderer)
protected void	MultiLineRenderer._removeRenderer(SequenceRenderer renderer)
protected void	SequencePoster._setRenderer(SequenceRenderer r) Deprecated.
protected void	SequencePanel._setRenderer(SequenceRenderer r)
void	MultiLineRenderer.addRenderer(SequenceRenderer renderer) addRenderer adds a renderer as a new track.
double	LineInfo.getDepth(SequenceRenderer r)
void	MultiLineRenderer.removeRenderer(SequenceRenderer renderer) removeRenderer removes a renderer.
void	LineInfo.setDepth(SequenceRenderer r, double depth)
void	TranslatedSequencePanel.setRenderer(SequenceRenderer renderer) setRenderer sets the current SequenceRenderer.
void	SequenceRendererWrapper.setRenderer(SequenceRenderer renderer)
void	SequencePoster.setRenderer(SequenceRenderer r) Deprecated.
void	SequencePanelWrapper.setRenderer(SequenceRenderer renderer)
void	SequencePanel.setRenderer(SequenceRenderer r)
void	OverlayRendererWrapper.setRenderer(SequenceRenderer renderer)
void	LabelledSequenceRenderer.setRenderer(SequenceRenderer sR) Set the child renderer responsible for drawing the contents of this track

Constructors in org.biojava.bio.gui.sequence with parameters of type SequenceRenderer

Constructor and Description
BumpedRenderer(SequenceRenderer renderer)
BumpedRenderer(SequenceRenderer renderer, int leading, int trailing)
FilteringRenderer(SequenceRenderer renderer, FeatureFilter filter, boolean recurse)
GappedRenderer(SequenceRenderer renderer)
LabelledSequenceRenderer(java.lang.String label, SequenceRenderer renderer)
OverlayRendererWrapper(SequenceRenderer renderer)
PaddingRenderer(SequenceRenderer renderer, double padding) Build a new PaddingRenderer that wraps renderer and has padding depth padding.
RendererForwarder(SequenceRenderer source, ChangeSupport cs)
SequenceRendererWrapper(SequenceRenderer renderer) Create a new wrapper with a wrapped renderer