A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

O

OBB - Class in ProGAL.geom3d.volumes

OBB(Point, Vector, Vector, Vector) - Constructor for class ProGAL.geom3d.volumes.OBB

OBB(Point, Vector[], double[]) - Constructor for class ProGAL.geom3d.volumes.OBB

occupancy - Variable in class ProGAL.proteins.PDBFile.AtomRecord

OldTESS - Class in ProGAL.geom3d.tess

OldTESS() - Constructor for class ProGAL.geom3d.tess.OldTESS

onBoundary() - Method in class ProGAL.geom2d.delaunay.Vertex

onCH(Triangle) - Method in class ProGAL.geom2d.delaunay.DTWithBigPoints

onCircle(Point) - Method in class ProGAL.geom2d.Circle

oneoneMove(Point, Point, Point, Point) - Static method in class ProGAL.geom2d.Circle

opposite(CVertex) - Method in class ProGAL.geom3d.complex.CEdge

opposites - Variable in class ProGAL.geom3d.tessellation.BowyerWatson.Tet

oppositeTriangle(CVertex) - Method in class ProGAL.geom3d.complex.CTetrahedron

oppositeVertex(CTriangle) - Method in class ProGAL.geom3d.complex.CTetrahedron

TODO: Copy to Tetrahedron

oppositeVertex(CEdge) - Method in class ProGAL.geom3d.complex.CTriangle

TODO: Copy to Triangle

oppositeVertices(int) - Method in class ProGAL.geomNd.complex.Tessel

optimalRotation(Point[], Point[]) - Method in class ProGAL.geom3d.Line

Return the optimal right-hand rotation around the line that brings the m-points as close to the f-points as possible.

optimalSuperposition(List<Point>, List<Point>) - Static method in class ProGAL.geom3d.superposition.RMSD

optimalSuperposition(List<Point>, List<Point>, List<Integer>) - Static method in class ProGAL.geom3d.superposition.RMSD

orient(Point, Point, Point, Point) - Method in class ProGAL.geom3d.predicates.ExactJavaPredicates

orient(Point, Point, Point, Point) - Method in class ProGAL.geom3d.predicates.ExactNativePredicates

orient(Point, Point, Point, Point) - Method in class ProGAL.geom3d.predicates.InexactJavaPredicates

orient(Point, Point, Point, Point) - Method in class ProGAL.geom3d.predicates.InexactRegularJavaPredicates

orient(Point, Point, Point, Point) - Method in class ProGAL.geom3d.predicates.Predicates

orientation(Point, Point, Point, Point) - Static method in class ProGAL.geom3d.Point

orientation(Point, Point, Point, Point, Point) - Static method in class ProGAL.geom3d.Point

orientPredCounter - Static variable in class ProGAL.geom2d.delaunay.DTWithBigPoints

origo - Static variable in class ProGAL.geom2d.Point

orthogonalProjection(Point) - Method in class ProGAL.geom3d.Line

Returns the othogonal projection of the point q onto this line.

orthogonalProjection(PointList) - Method in class ProGAL.geom3d.Line

Returns the smallest segment that contains all orthogonol projections of a point set onto this line.

orthogonalProjectionParameter(Point) - Method in class ProGAL.geom3d.Line

Returns the line-parameter of the othogonal projection of the point q onto this line.

orthogonalProjectionParameters(PointList) - Method in class ProGAL.geom3d.Line

Returns the line-parameters of the end-points of the smallest segment that contains all orthogonol projections of a point set onto this line.

orthonormalizeThis() - Method in class ProGAL.math.Matrix

Run Gram-Schmidt orthonormalization procedure.

outerProduct(Vector) - Method in class ProGAL.geomNd.Vector

overlaps(Volume) - Method in class ProGAL.geom3d.volumes.Cone

overlaps(Volume) - Method in class ProGAL.geom3d.volumes.Cylinder

overlaps(Volume) - Method in class ProGAL.geom3d.volumes.Lens

overlaps(LSS) - Method in class ProGAL.geom3d.volumes.LSS

overlaps(Volume) - Method in class ProGAL.geom3d.volumes.LSS

overlaps(OBB) - Method in class ProGAL.geom3d.volumes.OBB

Returns true iff this box has an overlap with b.

overlaps(Volume) - Method in class ProGAL.geom3d.volumes.OBB

overlaps(Volume) - Method in class ProGAL.geom3d.volumes.RSS

overlaps(RSS) - Method in class ProGAL.geom3d.volumes.RSS

674HOps

overlaps(Volume) - Method in class ProGAL.geom3d.volumes.Sphere

Returns true if the sphere overlaps with vol.

overlaps(Volume) - Method in class ProGAL.geom3d.volumes.Tetrahedron

overlaps(Volume) - Method in interface ProGAL.geom3d.volumes.Volume

Determine if this volume overlaps vol.

overlaps(SecondaryStructure.SSSegment) - Method in class ProGAL.proteins.belta.SecondaryStructure.SSSegment