Uses of Interface
org.biojava.bio.gui.sequence.SequenceRenderer
Packages that use SequenceRenderer
Package
Description
Graphical displays of biological sequences and associated annotations.
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Uses of SequenceRenderer in org.biojava.bio.gui.sequence
Classes in org.biojava.bio.gui.sequence that implement SequenceRendererModifier and TypeClassDescriptionclass
Renders an ABI trace file as a chromatogram graph.class
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
class
class
FeatureBlockSequenceRenderer
forms a bridge betweenSequence
rendering andFeature
rendering.class
class
A renderer that will display a gapped sequence as a discontinuous series of regions.class
A FeatureRenderer that renders a particular Glyph for Features accepted by a particular FeatureFilterclass
Renderer which draws a track of sequence with a textual label.class
MultiLineRenderer
is aSequenceRenderer
which collects a number of otherSequenceRenderer
s each of which render their own view of aSequence
.class
OffsetRulerRenderer can render the ruler starting from an arbitrary offset from the sequence.class
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
A renderer that adds padding before and after a delegate renderer.class
A concrete AbstractPeptideDigestRenderer.class
RulerRenderer
renders numerical scales in sequence coordinates.class
A GlyphRenderer subclass that specificatlly handles Features pertaining to Secondary Structure (Helices, Turns and Strands).class
An implementation of SequenceRenderer that delegates rendering to another renderer.class
Class that handles drawing in six frames for other classes.class
Compute sites of stop codons.class
SymbolSequenceRenderer
renders symbols of aSymbolList
.Methods in org.biojava.bio.gui.sequence that return SequenceRendererModifier and TypeMethodDescriptionOverlayRendererWrapper.getRenderer()
SequencePanelWrapper.getRenderer()
SequenceRendererWrapper.getRenderer()
TranslatedSequencePanel.getRenderer()
getRenderer
returns the currentSequenceRenderer
.Methods in org.biojava.bio.gui.sequence with parameters of type SequenceRendererModifier and TypeMethodDescriptionprotected void
MultiLineRenderer._addRenderer
(SequenceRenderer renderer) protected void
MultiLineRenderer._removeRenderer
(SequenceRenderer renderer) protected void
SequencePanel._setRenderer
(SequenceRenderer r) protected void
SequencePoster._setRenderer
(SequenceRenderer r) Deprecated.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
LabelledSequenceRenderer.setRenderer
(SequenceRenderer sR) Set the child renderer responsible for drawing the contents of this trackvoid
OverlayRendererWrapper.setRenderer
(SequenceRenderer renderer) void
SequencePanel.setRenderer
(SequenceRenderer r) void
SequencePanelWrapper.setRenderer
(SequenceRenderer renderer) void
SequencePoster.setRenderer
(SequenceRenderer r) Deprecated.void
SequenceRendererWrapper.setRenderer
(SequenceRenderer renderer) void
TranslatedSequencePanel.setRenderer
(SequenceRenderer renderer) setRenderer
sets the currentSequenceRenderer
.Constructors in org.biojava.bio.gui.sequence with parameters of type SequenceRendererModifierConstructorDescriptionBumpedRenderer
(SequenceRenderer renderer) BumpedRenderer
(SequenceRenderer renderer, int leading, int trailing) FilteringRenderer
(SequenceRenderer renderer, FeatureFilter filter, boolean recurse) GappedRenderer
(SequenceRenderer renderer) LabelledSequenceRenderer
(String label, SequenceRenderer renderer) OverlayRendererWrapper
(SequenceRenderer renderer) PaddingRenderer
(SequenceRenderer renderer, double padding) Build a new PaddingRenderer that wrapsrenderer
and has padding depthpadding
.RendererForwarder
(SequenceRenderer source, ChangeSupport cs) SequenceRendererWrapper
(SequenceRenderer renderer) Create a new wrapper with a wrapped renderer