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P
P0
- Variable in class fr.orsay.lri.varna.models.
CubicBezierCurve
The four points defining the curve.
P1
- Variable in class fr.orsay.lri.varna.models.
CubicBezierCurve
The four points defining the curve.
P2
- Variable in class fr.orsay.lri.varna.models.
CubicBezierCurve
The four points defining the curve.
P3
- Variable in class fr.orsay.lri.varna.models.
CubicBezierCurve
The four points defining the curve.
paginateStructure()
- Method in class fr.orsay.lri.varna.models.rna.
RNA
paintComponent(Graphics)
- Method in class fr.orsay.lri.varna.components.
GradientEditorPanel
paintComponent(Graphics)
- Method in class fr.orsay.lri.varna.components.
ReorderableJList.ReorderableListCellRenderer
paintComponent(Graphics)
- Method in class fr.orsay.lri.varna.
VARNAPanel
paintComponent(Graphics, boolean)
- Method in class fr.orsay.lri.varna.
VARNAPanel
paintComponent(Graphics)
- Method in class fr.orsay.lri.varna.views.
PrintPanel
PALETTE_HEIGHT
- Static variable in class fr.orsay.lri.varna.components.
GradientEditorPanel
panel
- Variable in class fr.orsay.lri.varna.views.
VueAnnotation
panel
- Variable in class fr.orsay.lri.varna.views.
VueBorder
panel
- Variable in class fr.orsay.lri.varna.views.
VueBPHeightIncrement
panel
- Variable in class fr.orsay.lri.varna.views.
VueBPThickness
panel
- Variable in class fr.orsay.lri.varna.views.
VueBPType
panel
- Variable in class fr.orsay.lri.varna.views.
VueChemProbAnnotation
panel
- Variable in class fr.orsay.lri.varna.views.
VueFont
panel
- Variable in class fr.orsay.lri.varna.views.
VueGlobalRotation
panel
- Variable in class fr.orsay.lri.varna.views.
VueHighlightRegionEdit
panel
- Variable in class fr.orsay.lri.varna.views.
VueJPEG
panel
- Variable in class fr.orsay.lri.varna.views.
VueManualInput
panel
- Variable in class fr.orsay.lri.varna.views.
VueNumPeriod
panel
- Variable in class fr.orsay.lri.varna.views.
VueSpaceBetweenBases
panel
- Variable in class fr.orsay.lri.varna.views.
VueStyleBP
panel
- Variable in class fr.orsay.lri.varna.views.
VueZoom
panelToLogicPoint(Point2D.Double)
- Method in class fr.orsay.lri.varna.
VARNAPanel
PARAM_COLOR
- Static variable in class fr.orsay.lri.varna.models.rna.
ModeleBP
PARAM_EDGE3
- Static variable in class fr.orsay.lri.varna.models.rna.
ModeleBP
PARAM_EDGE5
- Static variable in class fr.orsay.lri.varna.models.rna.
ModeleBP
PARAM_INNER_COLOR
- Static variable in class fr.orsay.lri.varna.models.rna.
ModeleStyleBase
PARAM_NUMBER_COLOR
- Static variable in class fr.orsay.lri.varna.models.rna.
ModeleStyleBase
PARAM_OUTLINE_COLOR
- Static variable in class fr.orsay.lri.varna.models.rna.
ModeleStyleBase
PARAM_STERICITY
- Static variable in class fr.orsay.lri.varna.models.rna.
ModeleBP
PARAM_TEXT_COLOR
- Static variable in class fr.orsay.lri.varna.models.rna.
ModeleStyleBase
PARAM_THICKNESS
- Static variable in class fr.orsay.lri.varna.models.rna.
ModeleBP
parseColorMap(String)
- Static method in class fr.orsay.lri.varna.models.rna.
ModeleColorMap
parseDimension(String)
- Method in class fr.orsay.lri.varna.models.
VARNAConfigLoader
parseHighlightRegionAnnotation(String, VARNAPanel)
- Static method in class fr.orsay.lri.varna.models.annotations.
HighlightRegionAnnotation
parseStruct(String)
- Method in class fr.orsay.lri.varna.models.rna.
RNA
periodNumOpt
- Static variable in class fr.orsay.lri.varna.models.
VARNAConfigLoader
phrase
- Variable in class fr.orsay.lri.varna.views.
Imprimer
placeTerminalLoop(ArrayList<ModeleBase>, RNA)
- Method in class fr.orsay.lri.varna.models.rna.
VARNASecDraw.HelixEmbedding
planarize(int[])
- Static method in class fr.orsay.lri.varna.models.rna.
RNAMLParser
Computes and returns a maximal planar subset of the current structure.
planarize(ArrayList<ModeleBP>, ArrayList<ModeleBP>, ArrayList<ModeleBP>, int)
- Static method in class fr.orsay.lri.varna.models.rna.
RNAMLParser
pointFromXml(Element)
- Method in class fr.orsay.lri.varna.models.templates.
RNATemplate.LoadFromXml
points
- Variable in class fr.orsay.lri.varna.models.
CubicBezierCurve
The n+1 points between the n lines.
PolygonCommand
- Class in
fr.orsay.lri.varna.models.export
PolygonCommand(Point2D.Double[], double)
- Constructor for class fr.orsay.lri.varna.models.export.
PolygonCommand
pos3
- Variable in class fr.orsay.lri.varna.models.rna.
RNAMLParser.BPTemp
pos3
- Variable in class fr.orsay.lri.varna.models.rna.
RNAMLParser.HelixTemp
pos5
- Variable in class fr.orsay.lri.varna.models.rna.
RNAMLParser.BPTemp
pos5
- Variable in class fr.orsay.lri.varna.models.rna.
RNAMLParser.HelixTemp
POSITION
- Static variable in class fr.orsay.lri.varna.models.annotations.
TextAnnotation
if the annoted text is located by a static position
position
- Variable in class fr.orsay.lri.varna.views.
VueAnnotation
positionInHelix
- Variable in class fr.orsay.lri.varna.models.templates.
RNANodeValueTemplateBasePair
The position (in the 5' to 3' order) of this base pair in the original helix.
positionInHelix
- Variable in class fr.orsay.lri.varna.models.templates.
RNANodeValueTemplateBrokenBasePair
The position (in the 5' to 3' order) of this base in the original helix.
positionneSpecificStrand(int, double)
- Method in class fr.orsay.lri.varna.models.rna.
Motif
Set the coordinates of all bases for one strand in particular
positionneStrand()
- Method in class fr.orsay.lri.varna.models.rna.
Motif
Set the coordinates of all bases for all strands in the list of strands
postProcess()
- Method in class fr.orsay.lri.varna.models.rna.
RNAMLParser
predrawTree(double, double, VARNASecDraw.RNATree, double, RNA, VARNASecDraw.HelixEmbedding, ArrayList<VARNASecDraw.HelixEmbedding>)
- Method in class fr.orsay.lri.varna.models.rna.
VARNASecDraw
prev
- Variable in class fr.orsay.lri.varna.models.naView.
Radloop
print(Graphics, PageFormat, int)
- Method in class fr.orsay.lri.varna.views.
Imprimer
print(Graphics, PageFormat, int)
- Method in class fr.orsay.lri.varna.views.
PrintPanel
printIntArray(int[])
- Static method in class fr.orsay.lri.varna.models.templates.
RNATemplateAlign
Print an integer array.
printIntArrayList(ArrayList<Integer>)
- Static method in class fr.orsay.lri.varna.models.templates.
RNATemplateAlign
Print an integer ArrayList.
printMapping(RNATemplateMapping, RNATemplate, String)
- Static method in class fr.orsay.lri.varna.models.templates.
RNATemplateAlign
PrintPanel
- Class in
fr.orsay.lri.varna.views
This panel generates a 2D graphics image for screen display and printing.
PrintPanel()
- Constructor for class fr.orsay.lri.varna.views.
PrintPanel
printShortMatrix(short[][])
- Static method in class fr.orsay.lri.varna.models.templates.
RNATemplateAlign
Print an matrix of shorts.
PrintTest
- Class in
fr.orsay.lri.varna.views
This program demonstrates how to print 2D graphics
PrintTest()
- Constructor for class fr.orsay.lri.varna.views.
PrintTest
PrintTestFrame
- Class in
fr.orsay.lri.varna.views
This frame shows a panel with 2D graphics and buttons to print the graphics and to set up the page format.
PrintTestFrame()
- Constructor for class fr.orsay.lri.varna.views.
PrintTestFrame
project(Point2D.Double, Point2D.Double, Point2D.Double)
- Method in class fr.orsay.lri.varna.views.
VueUI
propertyChange(PropertyChangeEvent)
- Method in class fr.orsay.lri.varna.views.
VueColorMapStyle
PSArc(double, double, double, double, double, double)
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSArc(double, double, double, double, double)
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSBBox(double, double, double, double)
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSClosePath()
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSExport
- Class in
fr.orsay.lri.varna.models.export
PSExport()
- Constructor for class fr.orsay.lri.varna.models.export.
PSExport
PSFill()
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSLineTo(double, double)
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSMacros()
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSMoveTo(double, double)
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSNewPath()
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSRLineTo(double, double)
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSSetColor(Color)
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSSetFont(int, double)
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSSetLineWidth(double)
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSShow()
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSStroke()
- Method in class fr.orsay.lri.varna.models.export.
PSExport
PSText(String)
- Method in class fr.orsay.lri.varna.models.export.
PSExport
Overview
Package
Class
Use
Tree
Deprecated
Index
Help
PREV LETTER
NEXT LETTER
FRAMES
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All Classes
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