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I
incenter()
- Method in class ProGAL.geom3d.
Triangle
incenter()
- Method in class ProGAL.geom3d.volumes.
Tetrahedron
Find the center of the inscribed sphere.
inCH(Triangle)
- Method in class ProGAL.geom2d.delaunay.
DTWithBigPoints
inCircle(Point, Point, Point, Point)
- Static method in class ProGAL.geom2d.
Point
Returns a positive double if the point is inside the circle through the 3 specified points (must be in clockwise order).
incircle(double[], double[], double[], double[])
- Method in class ProGAL.geom3d.predicates.
ExactJavaPredicates
inCircumCircle(Point)
- Method in class ProGAL.geom2d.
Triangle
inCylinder(Point)
- Method in class ProGAL.geom3d.volumes.
Cylinder
index()
- Method in class ProGAL.proteins.structure.
AminoAcid
index()
- Method in class ProGAL.proteins.structure.
Atom
InexactJavaPredicates
- Class in
ProGAL.geom3d.predicates
InexactJavaPredicates()
- Constructor for class ProGAL.geom3d.predicates.
InexactJavaPredicates
InexactJavaPredicatesTest
- Class in
ProGAL.geom3d.predicates.tests
InexactJavaPredicatesTest()
- Constructor for class ProGAL.geom3d.predicates.tests.
InexactJavaPredicatesTest
InexactRegularJavaPredicates
- Class in
ProGAL.geom3d.predicates
InexactRegularJavaPredicates()
- Constructor for class ProGAL.geom3d.predicates.
InexactRegularJavaPredicates
InfCylinder
- Class in
ProGAL.geom3d.volumes
An infinitely extended cylinder defined using a line and a radius.
InfCylinder(Line, double)
- Constructor for class ProGAL.geom3d.volumes.
InfCylinder
initChainID
- Variable in class ProGAL.proteins.
PDBFile.HelixRecord
initChainID
- Variable in class ProGAL.proteins.
PDBFile.SheetRecord
initSeqNum
- Variable in class ProGAL.proteins.
PDBFile.HelixRecord
initSeqNum
- Variable in class ProGAL.proteins.
PDBFile.SheetRecord
inplane(Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
ExactJavaPredicates
inplane(Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
ExactNativePredicates
inplane(Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
InexactJavaPredicates
inplane(Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
InexactRegularJavaPredicates
inplane(Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
Predicates
inradius()
- Method in class ProGAL.geom3d.
Triangle
insert(Object)
- Method in class ProGAL.dataStructures.
Heap
insert(T)
- Method in class ProGAL.dataStructures.
Set
insertAfter(Point, int)
- Method in class ProGAL.geom2d.
Polygon
inserts point p into the polygon after the corner with specified index
inSphere(Point, Point, Point, Point, Point)
- Static method in class ProGAL.geom3d.
Point
Returns a positive double if point t is inside the sphere through points p, q, r, s.
insphere(Point, Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
ExactJavaPredicates
insphere(Tetrahedron, Point)
- Method in class ProGAL.geom3d.predicates.
ExactJavaPredicates
insphere(Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
ExactJavaPredicates
insphere(Triangle, Point)
- Method in class ProGAL.geom3d.predicates.
ExactJavaPredicates
insphere(Point, Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
ExactNativePredicates
insphere(Tetrahedron, Point)
- Method in class ProGAL.geom3d.predicates.
ExactNativePredicates
insphere(Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
ExactNativePredicates
insphere(Triangle, Point)
- Method in class ProGAL.geom3d.predicates.
ExactNativePredicates
insphere(Point, Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
InexactJavaPredicates
insphere(Tetrahedron, Point)
- Method in class ProGAL.geom3d.predicates.
InexactJavaPredicates
insphere(Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
InexactJavaPredicates
insphere(Triangle, Point)
- Method in class ProGAL.geom3d.predicates.
InexactJavaPredicates
insphere(Point, Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
InexactRegularJavaPredicates
insphere(Tetrahedron, Point)
- Method in class ProGAL.geom3d.predicates.
InexactRegularJavaPredicates
insphere(Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
InexactRegularJavaPredicates
insphere(Triangle, Point)
- Method in class ProGAL.geom3d.predicates.
InexactRegularJavaPredicates
insphere(Point, Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
Predicates
insphere(Tetrahedron, Point)
- Method in class ProGAL.geom3d.predicates.
Predicates
insphere(Point, Point, Point, Point)
- Method in class ProGAL.geom3d.predicates.
Predicates
insphere(Triangle, Point)
- Method in class ProGAL.geom3d.predicates.
Predicates
inSphere(Tessel, Point)
- Static method in class ProGAL.geomNd.complex.delaunayComplex.
BowyerWatson
Return true if and only if the point p is inside or on the boundary of the circumsphere of t
InteractiveBinaryTree
- Interface in
ProGAL.dataStructures.viewer
intersectionParameter(Line)
- Method in class ProGAL.geom2d.
Line
intersectionParameter(Line)
- Method in class ProGAL.geom3d.
ParametricPlane
Returns a parameter setting for the line describing the intersection with this plane.
intersectionParameter(Line)
- Method in class ProGAL.geom3d.volumes.
Cylinder
intersectionParameters(Line)
- Method in class ProGAL.geom3d.volumes.
Sphere
Returns the two line-parameters that indicate where
line
intersects this sphere.
intersections(Circle)
- Method in class ProGAL.geom2d.
Circle
intersections(Line)
- Method in class ProGAL.geom2d.
Circle
intersects(LineSegment)
- Method in class ProGAL.geom2d.
LineSegment
returns TRUE if this line segment properly intersects line segment s.
intersects(Interval)
- Method in class ProGAL.geom3d.complex.alphaComplex.
Interval
Interval
- Class in
ProGAL.geom3d.complex.alphaComplex
Interval(double, double)
- Constructor for class ProGAL.geom3d.complex.alphaComplex.
Interval
invert()
- Method in class ProGAL.math.
Matrix
Return the inverse of this matrix.
invertThis()
- Method in class ProGAL.math.
Matrix.ImmutableMatrix
invertThis()
- Method in class ProGAL.math.
Matrix
Invert this matrix (overwrites this and returns it).
invertThis()
- Method in class ProGAL.math.
Matrix3x3
Invert this matrix (overwrites this and returns it).
IOToolbox
- Class in
ProGAL.io
A wrapper class for static file input/output methods.
IOToolbox()
- Constructor for class ProGAL.io.
IOToolbox
isAcute()
- Method in class ProGAL.geom3d.volumes.
Tetrahedron
isAlive()
- Method in class ProGAL.geom2d.
TriangulationFace
isAttached()
- Method in class ProGAL.geom3d.complex.alphaComplex.
EdgeAlphaProperties
isAttached()
- Method in interface ProGAL.geom3d.complex.alphaComplex.
SimplexAlphaProperties
isAttached()
- Method in class ProGAL.geom3d.complex.alphaComplex.
TetrahedronAlphaProperties
isAttached()
- Method in class ProGAL.geom3d.complex.alphaComplex.
TriangleAlphaProperties
isAttached()
- Method in class ProGAL.geom3d.complex.alphaComplex.
VertexAlphaProperties
isBB()
- Method in class ProGAL.proteins.structure.
Atom
isBigpoint()
- Method in class ProGAL.geom3d.complex.
CVertex
isBigpoint()
- Method in class ProGAL.geomNd.complex.
Vertex
isBuried(CVertex)
- Method in class ProGAL.proteins.
ProteinComplex
isBuried(PDBFile.AtomRecord)
- Method in class ProGAL.proteins.
ProteinComplex
isClosed()
- Method in class ProGAL.proteins.beltaStructure.
ChainTreeLoop
isClosed()
- Method in class ProGAL.proteins.beltaStructure.loop.
LoopStructure
Indicates if the loop is closed, ie.
isConvex()
- Method in class ProGAL.geom2d.
Polygon
isDegenerate()
- Method in class ProGAL.geom3d.complex.
CVertex
isDegenerate()
- Method in class ProGAL.geomNd.complex.
Vertex
isDelaunay()
- Method in class ProGAL.geom3d.complex.delaunayComplex.
DelaunayComplex
TODO: Finish
isEmpty()
- Method in class ProGAL.dataStructures.
DLCyclicList
Returns true if the list is empty
isEmpty()
- Method in class ProGAL.dataStructures.
DLList
isEmpty()
- Method in class ProGAL.dataStructures.
Heap
returns true if the heap is empty.
isEmpty()
- Method in class ProGAL.dataStructures.
Set
isEmpty(Point[], double)
- Method in class ProGAL.geom3d.volumes.
Sphere
isEqual(Set<T>)
- Method in class ProGAL.dataStructures.
Set
isFlat()
- Method in class ProGAL.geom2d.
TriangulationFace
isFlat()
- Method in class ProGAL.geom3d.complex.
CTetrahedron
isHydrogen()
- Method in class ProGAL.proteins.
PDBFile.AtomRecord
isHydrogenAcceptor()
- Method in class ProGAL.proteins.
PDBFile.AtomRecord
Returns true if the atom can act as a hydrogen acceptor in a hydrogen bond
isHydrogenDonor()
- Method in class ProGAL.proteins.
PDBFile.AtomRecord
Returns true if the atom can act as a hydrogen donor in a hydrogen bond
isInside(Point)
- Method in class ProGAL.geom3d.volumes.
Sphere
Returns true if the point is inside this sphere
isInside(Point, double)
- Method in class ProGAL.geom3d.volumes.
Sphere
isInside(Point)
- Method in class ProGAL.geom3d.volumes.
Tetrahedron
Returns true if the point p is inside this tetrahedron.
isIntersected(Sphere)
- Method in class ProGAL.geom3d.volumes.
Sphere
Returns true if this sphere is intersected or touched by another sphere.
isLocked(int, int)
- Method in class ProGAL.proteins.chainTree.
ChainTree
isMember(Object)
- Method in class ProGAL.dataStructures.
Set
isModified()
- Method in class ProGAL.geom3d.complex.
CTetrahedron
isModified()
- Method in class ProGAL.geomNd.complex.
Tessel
isNonsingular()
- Method in class ProGAL.math.
LUDecomposition
Is the matrix nonsingular?
isOnBackbone()
- Method in class ProGAL.proteins.
PDBFile.AtomRecord
isParallel(Vector)
- Method in class ProGAL.geom3d.
Vector
isParallelWith(Line)
- Method in class ProGAL.geom2d.
Line
isSquare()
- Method in class ProGAL.math.
Matrix
isSteinerAngle(Vector)
- Method in class ProGAL.geom3d.
Vector
isValid()
- Method in class ProGAL.proteins.belta.
BetaTopology
Checks if this beta-topology is valid.
isVertical()
- Method in class ProGAL.geom2d.
Line
isZeroVector()
- Method in class ProGAL.geomNd.
Vector
Return true if the length of this vector is 0.
iterator()
- Method in class ProGAL.dataStructures.
DLCyclicList
iterator()
- Method in class ProGAL.dataStructures.
Set
Overview
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