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Packages that use ModeleBP | |
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fr.orsay.lri.varna | |
fr.orsay.lri.varna.interfaces | |
fr.orsay.lri.varna.models | |
fr.orsay.lri.varna.models.rna | |
fr.orsay.lri.varna.views |
Uses of ModeleBP in fr.orsay.lri.varna |
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Methods in fr.orsay.lri.varna with parameters of type ModeleBP | |
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private void |
VARNAPanel.drawBasePair(VueVARNAGraphics g2D,
Point2D.Double orig,
Point2D.Double dest,
ModeleBP style,
double newRadius)
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Method parameters in fr.orsay.lri.varna with type arguments of type ModeleBP | |
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void |
VARNAPanel.fireStructureChanged(Set<ModeleBP> current,
Set<ModeleBP> addedBasePairs,
Set<ModeleBP> removedBasePairs)
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void |
VARNAPanel.fireStructureChanged(Set<ModeleBP> current,
Set<ModeleBP> addedBasePairs,
Set<ModeleBP> removedBasePairs)
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void |
VARNAPanel.fireStructureChanged(Set<ModeleBP> current,
Set<ModeleBP> addedBasePairs,
Set<ModeleBP> removedBasePairs)
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Uses of ModeleBP in fr.orsay.lri.varna.interfaces |
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Method parameters in fr.orsay.lri.varna.interfaces with type arguments of type ModeleBP | |
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void |
InterfaceVARNARNAListener.onStructureChanged(Set<ModeleBP> current,
Set<ModeleBP> addedBasePairs,
Set<ModeleBP> removedBasePairs)
Reacts to modification of the structure (Base-pair addition/removal). |
void |
InterfaceVARNARNAListener.onStructureChanged(Set<ModeleBP> current,
Set<ModeleBP> addedBasePairs,
Set<ModeleBP> removedBasePairs)
Reacts to modification of the structure (Base-pair addition/removal). |
void |
InterfaceVARNARNAListener.onStructureChanged(Set<ModeleBP> current,
Set<ModeleBP> addedBasePairs,
Set<ModeleBP> removedBasePairs)
Reacts to modification of the structure (Base-pair addition/removal). |
Uses of ModeleBP in fr.orsay.lri.varna.models |
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Fields in fr.orsay.lri.varna.models declared as ModeleBP | |
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private ModeleBP |
VARNAEdits.AddBPEdit._msbp
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private ModeleBP |
VARNAEdits.RemoveBPEdit._msbp
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Constructors in fr.orsay.lri.varna.models with parameters of type ModeleBP | |
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VARNAEdits.AddBPEdit(int i,
int j,
ModeleBP msbp,
VARNAPanel vp)
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VARNAEdits.RemoveBPEdit(int i,
int j,
ModeleBP msbp,
VARNAPanel vp)
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Uses of ModeleBP in fr.orsay.lri.varna.models.rna |
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Fields in fr.orsay.lri.varna.models.rna declared as ModeleBP | |
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private ModeleBP |
ModeleBase._BP
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Fields in fr.orsay.lri.varna.models.rna with type parameters of type ModeleBP | |
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private ArrayList<ModeleBP> |
RNA._structureAux
Additional bonds and info can be specified here. |
Methods in fr.orsay.lri.varna.models.rna that return ModeleBP | |
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ModeleBP |
RNAMLParser.BPTemp.createBPStyle(ModeleBase mb5,
ModeleBase mb3)
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ModeleBP |
RNA.getBPStyle(int i,
int j)
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ModeleBP |
ModeleBase.getStyleBP()
Gets the base pair type for this element. |
Methods in fr.orsay.lri.varna.models.rna that return types with arguments of type ModeleBP | |
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ArrayList<ModeleBP> |
RNA.getAllBPs()
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ArrayList<ModeleBP> |
RNA.getAuxBPs()
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ArrayList<ModeleBP> |
RNA.getAuxBPs(int i)
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ArrayList<ModeleBP> |
RNA.getBPsAt(int i)
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ArrayList<ModeleBP> |
RNA.getSecStrBPs()
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ArrayList<ModeleBP> |
RNA.getStructureAux()
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Methods in fr.orsay.lri.varna.models.rna with parameters of type ModeleBP | |
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void |
RNA.addBP(int i,
int j,
ModeleBP msbp)
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void |
RNA.addBPAux(int i,
int j,
ModeleBP msbp)
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void |
RNA.addBPToStructure(int index5,
int index3,
ModeleBP msbp)
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void |
RNA.addBPToStructureUsingNumbers(int number5,
int number3,
ModeleBP msbp)
Adds a base pair to this RNA's structure. |
int |
ModeleBP.compareTo(ModeleBP mb)
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private void |
RNA.drawBasePair(SecStrDrawingProducer out,
Point2D.Double orig,
Point2D.Double dest,
ModeleBP style,
VARNAConfig conf)
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Color |
RNA.getBasePairColor(ModeleBP bp,
VARNAConfig conf)
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double |
RNA.getBasePairThickness(ModeleBP bp,
VARNAConfig conf)
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void |
RNA.removeBP(ModeleBP ms)
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void |
ModeleBase.setElementStructure(int structure,
ModeleBP type)
Sets this InterfaceBase associated structure element. |
void |
ModeleBase.setStyleBP(ModeleBP type)
Sets the base pair type for this element. |
Method parameters in fr.orsay.lri.varna.models.rna with type arguments of type ModeleBP | |
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private void |
RNA.applyBPs(ArrayList<ModeleBP> allbps)
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static void |
RNAMLParser.planarize(ArrayList<ModeleBP> input,
ArrayList<ModeleBP> planar,
ArrayList<ModeleBP> others,
int length)
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static void |
RNAMLParser.planarize(ArrayList<ModeleBP> input,
ArrayList<ModeleBP> planar,
ArrayList<ModeleBP> others,
int length)
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static void |
RNAMLParser.planarize(ArrayList<ModeleBP> input,
ArrayList<ModeleBP> planar,
ArrayList<ModeleBP> others,
int length)
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Uses of ModeleBP in fr.orsay.lri.varna.views |
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Fields in fr.orsay.lri.varna.views declared as ModeleBP | |
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(package private) ModeleBP |
VueBPType._msbp
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Fields in fr.orsay.lri.varna.views with type parameters of type ModeleBP | |
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(package private) ArrayList<ModeleBP> |
VueBPThickness._msbp
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private ArrayList<ModeleBP> |
VueBPList.data
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Methods in fr.orsay.lri.varna.views with parameters of type ModeleBP | |
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void |
VueUI.UIAddBP(int i,
int j,
ModeleBP ms)
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void |
VueUI.UIRemoveBP(ModeleBP ms)
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Constructors in fr.orsay.lri.varna.views with parameters of type ModeleBP | |
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VueBPType(VARNAPanel vp,
ModeleBP msbp)
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Constructor parameters in fr.orsay.lri.varna.views with type arguments of type ModeleBP | |
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VueBPThickness(VARNAPanel vp,
ArrayList<ModeleBP> msbp)
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