Uses of Class
mgui.interfaces.shapes.Mesh3DInt

Packages that use Mesh3DInt

Package	Description
mgui.geometry.mesh	Provides classes representing and operating on 3D mesh shapes.
mgui.geometry.neuro.mesh
mgui.interfaces.shapes.mesh
mgui.interfaces.shapes.neuro
mgui.interfaces.shapes.util
mgui.interfaces.tools.shapes
mgui.io.domestic.printing
mgui.io.domestic.shapes
mgui.io.foreign.caret
mgui.io.foreign.duff
mgui.io.foreign.freesurfer
mgui.io.foreign.fsl
mgui.io.foreign.minc
mgui.io.foreign.wavefront
mgui.io.standard.gifti
mgui.io.standard.gifti.xml
mgui.morph.sections

Uses of Mesh3DInt in mgui.geometry.mesh

Methods in mgui.geometry.mesh with parameters of type Mesh3DInt

Modifier and Type	Method	Description
boolean	MeshEngine.computeMeanCurvature(Mesh3DInt mesh3d, ProgressUpdater progress)	Computes the vertex-wise mean curvature of this mesh and stores it in the "target_column" specified it the "Mean Curvature" attributes.
static boolean	MeshFunctions.computeVertexWiseCurvature(Mesh3DInt mesh3D, java.lang.String target_column, ProgressUpdater progress)	Computes the curvature of a mesh at each of its nodes, as the magnitude of the sum of surface normals of the triangles of which it is a node.
void	MeshEngine.doRoiOperation(Mesh3DInt mesh_int, java.lang.String method, InterfaceProgressBar progress_bar)	Runs the ROI operation specified by method.
void	MeshEngine.getMeshParts(Mesh3DInt mesh_int, ShapeSet3DInt shape_set)	Creates new mesh objects as a set of non-contiguous meshes from mesh_int, and adds these to shape_set.
void	MeshEngine.getMeshParts(Mesh3DInt mesh_int, ShapeSet3DInt shape_set, boolean copy_data, ProgressUpdater progress)	Creates new mesh objects as a set of non-contiguous meshes from mesh_int, and adds these to shape_set.
void	MeshEngine.getSubMesh(Mesh3DInt mesh, Mesh3DInt newmesh, boolean retain, boolean copydata)
void	MeshEngine.getSubMesh(Mesh3DInt mesh, Mesh3DInt newmesh, java.util.ArrayList<MguiNumber> mask, int value, boolean retain, boolean copydata)
void	MeshEngine.inflateMesh(Mesh3DInt mesh, java.lang.String method, ProgressUpdater progress)
static Mesh3D	MeshFunctions.inflateMeshTRP(Mesh3DInt mesh3D, double lambda, double beta, long max_itr, ProgressUpdater progress)	Inflate this mesh using the TRP method.
static Mesh3D	MeshInflation.inflateMeshTRP(Mesh3DInt mesh3D, double lambda, double beta, long max_itr, ProgressUpdater progress)	Inflates a given mesh, by relaxing its vertices towards the mean of its neighbours, as described by:
void	MeshEngine.inflateTRP(Mesh3DInt mesh, ProgressUpdater progress)
Volume3DInt	MeshEngine.mapMeshToVolume(Mesh3DInt mesh, Volume3DInt volume, java.lang.String method, InterfaceProgressBar progress_bar)
Volume3DInt	MeshEngine.mapMeshToVolumeGaussian(Mesh3DInt mesh_int, Volume3DInt volume, InterfaceProgressBar progress_bar)
static Volume3DInt	MeshFunctions.mapMeshToVolumeGaussian(Mesh3DInt mesh_int, Volume3DInt volume, java.lang.String mesh_column, java.lang.String grid_channel, double sigma_normal, double sigma_tangent, double sigma_max_normal, double sigma_max_tangent, boolean normalize, boolean is_discrete, ProgressUpdater progress)	Projects vertex-wise data from a given Mesh3DInt data column to a Grid3D channel, normal and transverse (tangent) Gaussian functions.
void	MeshEngine.selectBoundaryNodes(Mesh3DInt mesh_int)
static void	MeshSmoothing.setEquilateralFacesEM(Mesh3DInt meshInt, double max, double decay, double limit, boolean holdbounds, boolean constrain)	EM = Edge method...
static void	MeshFunctions.smoothEM(Mesh3DInt mesh)
void	MeshEngine.SmoothEM(Mesh3DInt mesh)
void	MeshEngine.smoothVertexValuesIsotropicGaussian(Mesh3DInt mesh_int, ProgressUpdater progress)	Uses the current parameters for "Smooth vertex values - Isotropic Gaussian" to smooth vertex values with a Gaussian kernel, isotropic in the plane of the surface mesh.
void	MeshEngine.splitRoiWithPlane(Mesh3DInt mesh_int, InterfaceProgressBar progress_bar)	Splits the ROI defined by roi_value into two parts, on either side of the plane defined by the section set and section number.
static void	MeshSubdivision.subdivideButterflyScheme(Mesh3DInt mesh, double w)
void	MeshEngine.SubdivideButterflyScheme(Mesh3DInt mesh)	Calls the function SubdivideButterflyScheme in the MeshSubdivision function class, using parameters specified in the AttributeList "Butterfly Scheme".
static void	MeshFunctions.subdivideMesh(Mesh3DInt mesh, int iter)	Subdivides iter times, for all triangle in mesh.
static void	MeshFunctions.subdivideMesh(Mesh3DInt mesh, int iter, double edgeThreshold, double areaThreshold)	Subdivides iter times, for triangles which meet the criteria specified by and .
void	MeshEngine.subdivideRois(Mesh3DInt mesh_int, InterfaceProgressBar progress_bar)	Subdivide the set of ROIs in mesh_int, by iteratively splitting the largest ROI in half along its narrowest section.

Uses of Mesh3DInt in mgui.geometry.neuro.mesh

Methods in mgui.geometry.neuro.mesh with parameters of type Mesh3DInt

Modifier and Type	Method	Description
Volume3DInt	NeuroMeshEngine.mapCortexToVolume(Mesh3DInt mesh_int, Volume3DInt volume, java.lang.Object thickness, ProgressUpdater progress)	Maps cortical surface values to a volume

Uses of Mesh3DInt in mgui.interfaces.shapes.mesh

Fields in mgui.interfaces.shapes.mesh declared as Mesh3DInt

Modifier and Type	Field	Description
protected Mesh3DInt	InterfaceMeshPanel.currentMesh
protected Mesh3DInt	InterfaceMeshPanel.dataOpsMesh

Uses of Mesh3DInt in mgui.interfaces.shapes.neuro

Subclasses of Mesh3DInt in mgui.interfaces.shapes.neuro

Modifier and Type	Class	Description
class	CorticalHemisphereSet3DInt
class	CorticalSurfaceSet3DInt	Representation of a set of cortical surfaces, including grey matter (GM) interfaces with white matter (WM) and cerebrospinal fluid (CSF).

Fields in mgui.interfaces.shapes.neuro declared as Mesh3DInt

Modifier and Type	Field	Description
Mesh3DInt	CorticalHemisphereSet3DInt.gm_mesh
Mesh3DInt	CorticalHemisphereSet3DInt.middle_mesh
Mesh3DInt	CorticalHemisphereSet3DInt.wm_mesh

Methods in mgui.interfaces.shapes.neuro with parameters of type Mesh3DInt

Modifier and Type	Method	Description
void	CorticalHemisphereSet3DInt.setMeshes(Mesh3DInt wm_mesh, Mesh3DInt middle_mesh, Mesh3DInt gm_mesh)
void	CorticalHemisphereSet3DInt.setMeshes(Mesh3DInt wm_mesh, Mesh3DInt middle_mesh, Mesh3DInt gm_mesh, boolean update)
void	CorticalHemisphereSet3DInt.setMeshGM(Mesh3DInt mesh)
void	CorticalHemisphereSet3DInt.setMeshGM(Mesh3DInt mesh, boolean update)
void	CorticalHemisphereSet3DInt.setMeshMiddle(Mesh3DInt mesh)
void	CorticalHemisphereSet3DInt.setMeshMiddle(Mesh3DInt mesh, boolean update)
void	CorticalHemisphereSet3DInt.setMeshWM(Mesh3DInt mesh)
void	CorticalHemisphereSet3DInt.setMeshWM(Mesh3DInt mesh, boolean update)

Uses of Mesh3DInt in mgui.interfaces.shapes.util

Methods in mgui.interfaces.shapes.util with parameters of type Mesh3DInt

Modifier and Type	Method	Description
static void	ShapeFunctions.setMeshConstraints(Mesh3DInt mesh, java.util.ArrayList<org.jogamp.vecmath.Point3f> constraints)

Uses of Mesh3DInt in mgui.interfaces.tools.shapes

Fields in mgui.interfaces.tools.shapes declared as Mesh3DInt

Modifier and Type	Field	Description
Mesh3DInt	ToolCutMeshWithPlaneOptions.mesh
Mesh3DInt	ToolGetMeshIntersectionPolylinesOptions.mesh1
Mesh3DInt	ToolGetMeshIntersectionPolylinesOptions.mesh2

Uses of Mesh3DInt in mgui.io.domestic.printing

Methods in mgui.io.domestic.printing with parameters of type Mesh3DInt

Modifier and Type	Method	Description
boolean	StlWriter.writeAscii(Mesh3DInt mesh, ProgressUpdater progress_bar)	Writes mesh as an ASCII-format STL file.
boolean	StlWriter.writeBinary(Mesh3DInt mesh, ProgressUpdater progress_bar)	Writes mesh as an binary-format STL file.
boolean	StlWriter.writeSurface(Mesh3DInt mesh, InterfaceIOOptions options, ProgressUpdater progress_bar)

Uses of Mesh3DInt in mgui.io.domestic.shapes

Fields in mgui.io.domestic.shapes declared as Mesh3DInt

Modifier and Type	Field	Description
protected Mesh3DInt	MeshOptionsDialogBox.currentMesh
Mesh3DInt	SurfaceDataInputOptions.mesh
Mesh3DInt	SurfaceDataOutputOptions.mesh
Mesh3DInt	SurfaceOutputOptions.mesh

Methods in mgui.io.domestic.shapes that return Mesh3DInt

Modifier and Type	Method	Description
Mesh3DInt	MeshOptionsDialogBox.getMesh()
Mesh3DInt	SurfaceOutputDialogBox.getMesh()
Mesh3DInt	Mesh3DLoader.loadSurface(ProgressUpdater progress_bar, InterfaceIOOptions options)
Mesh3DInt	SurfaceFileLoader.loadSurface()	Loads a single surface from the appropriate source.
Mesh3DInt	SurfaceFileLoader.loadSurface(ProgressUpdater progress_bar)	Loads a single surface from the appropriate source.
abstract Mesh3DInt	SurfaceFileLoader.loadSurface(ProgressUpdater progress_bar, InterfaceIOOptions options)	Loads a single surface from the appropriate source.

Methods in mgui.io.domestic.shapes that return types with arguments of type Mesh3DInt

Modifier and Type	Method	Description
java.util.ArrayList<Mesh3DInt>	SurfaceFileLoader.loadSurfaces()	Loads a set of surfaces from the appropriate source.

Methods in mgui.io.domestic.shapes with parameters of type Mesh3DInt

Modifier and Type	Method	Description
boolean	Mesh3DWriter.writeSurface(Mesh3DInt mesh, InterfaceIOOptions options, ProgressUpdater progress_bar)
boolean	SurfaceFileWriter.writeSurface(Mesh3DInt mesh)	Write mesh with this FileWriter.
abstract boolean	SurfaceFileWriter.writeSurface(Mesh3DInt mesh, InterfaceIOOptions options, ProgressUpdater progress_bar)	Write mesh with this FileWriter.
boolean	Mesh3DWriter.writeSurfaceBlocking(Mesh3DInt mesh, ProgressUpdater progress_bar)

Method parameters in mgui.io.domestic.shapes with type arguments of type Mesh3DInt

Modifier and Type	Method	Description
boolean	SurfaceFileWriter.writeSurfaces(java.util.ArrayList<Mesh3DInt> meshes)	Write meshes with this FileWriter.
boolean	SurfaceFileWriter.writeSurfaces(java.util.ArrayList<Mesh3DInt> meshes, InterfaceIOOptions options, ProgressUpdater progress_bar)	Write meshes with this FileWriter.

Uses of Mesh3DInt in mgui.io.foreign.caret

Fields in mgui.io.foreign.caret declared as Mesh3DInt

Modifier and Type	Field	Description
Mesh3DInt	CaretMetricOptions.mesh
Mesh3DInt	CaretPaintOptions.mesh	Deprecated.

Methods in mgui.io.foreign.caret that return Mesh3DInt

Modifier and Type	Method	Description
Mesh3DInt	CaretMetricOptionsDialog.getMesh()
Mesh3DInt	CaretPaintOptionsDialog.getMesh()	Deprecated.
protected Mesh3DInt	CaretSurfaceLoader.loadBinarySurface(ProgressUpdater progress_bar)
Mesh3DInt	CaretSurfaceLoader.loadSurface(ProgressUpdater progress_bar, InterfaceIOOptions options)

Methods in mgui.io.foreign.caret with parameters of type Mesh3DInt

Modifier and Type	Method	Description
protected NameMap	CaretPaintWriter.getDefaultNameMap(Mesh3DInt mesh, java.lang.String column)
protected boolean	CaretSurfaceWriter.writeBinarySurface(Mesh3DInt mesh3d, ProgressUpdater progress_bar)
boolean	CaretSurfaceWriter.writeSurface(Mesh3DInt mesh, InterfaceIOOptions options, ProgressUpdater progress_bar)

Uses of Mesh3DInt in mgui.io.foreign.duff

Methods in mgui.io.foreign.duff that return Mesh3DInt

Modifier and Type	Method	Description
Mesh3DInt	DuffSurfaceLoader.loadSurface(ProgressUpdater progress_bar, InterfaceIOOptions options)

Uses of Mesh3DInt in mgui.io.foreign.freesurfer

Methods in mgui.io.foreign.freesurfer that return Mesh3DInt

Modifier and Type	Method	Description
protected Mesh3DInt	FreesurferSurfaceLoader.loadAsciiSurface()
Mesh3DInt	FreesurferSurfaceLoader.loadSurface(ProgressUpdater progress_bar, InterfaceIOOptions options)

Methods in mgui.io.foreign.freesurfer with parameters of type Mesh3DInt

Modifier and Type	Method	Description
boolean	FreesurferSurfaceWriter.writeSurface(Mesh3DInt mesh, InterfaceIOOptions options, ProgressUpdater progress_bar)
protected boolean	FreesurferSurfaceWriter.writeSurfaceAscii(Mesh3DInt mesh, InterfaceIOOptions options, ProgressUpdater progress_bar)

Uses of Mesh3DInt in mgui.io.foreign.fsl

Methods in mgui.io.foreign.fsl that return Mesh3DInt

Modifier and Type	Method	Description
Mesh3DInt	FSLSurfaceLoader.loadSurface(ProgressUpdater progress_bar, InterfaceIOOptions options)

Uses of Mesh3DInt in mgui.io.foreign.minc

Methods in mgui.io.foreign.minc that return Mesh3DInt

Modifier and Type	Method	Description
Mesh3DInt	MincSurfaceLoader.loadSurface()
Mesh3DInt	MincSurfaceLoader.loadSurface(ProgressUpdater progress_bar, InterfaceIOOptions options)
protected Mesh3DInt	MincSurfaceLoader.loadSurfaceBlocking(ProgressUpdater progress_bar)

Methods in mgui.io.foreign.minc with parameters of type Mesh3DInt

Modifier and Type	Method	Description
boolean	MincSurfaceWriter.writeSurface(Mesh3DInt mesh)
boolean	MincSurfaceWriter.writeSurface(Mesh3DInt mesh, InterfaceIOOptions options, ProgressUpdater progress_bar)

Uses of Mesh3DInt in mgui.io.foreign.wavefront

Methods in mgui.io.foreign.wavefront that return Mesh3DInt

Modifier and Type	Method	Description
Mesh3DInt	WavefrontSurfaceLoader.loadSurface(ProgressUpdater progress_bar, InterfaceIOOptions options)

Methods in mgui.io.foreign.wavefront with parameters of type Mesh3DInt

Modifier and Type	Method	Description
boolean	WavefrontSurfaceWriter.writeSurface(Mesh3DInt mesh, InterfaceIOOptions options, ProgressUpdater progress_bar)

Uses of Mesh3DInt in mgui.io.standard.gifti

Fields in mgui.io.standard.gifti declared as Mesh3DInt

Modifier and Type	Field	Description
Mesh3DInt	GiftiInputOptions.current_mesh

Methods in mgui.io.standard.gifti that return Mesh3DInt

Modifier and Type	Method	Description
Mesh3DInt	GiftiSurfaceLoader.loadSurface(ProgressUpdater progress_bar, InterfaceIOOptions options)

Methods in mgui.io.standard.gifti with parameters of type Mesh3DInt

Modifier and Type	Method	Description
boolean	GiftiSurfaceWriter.writeSurface(Mesh3DInt mesh_int, InterfaceIOOptions options, ProgressUpdater progress_bar)

Uses of Mesh3DInt in mgui.io.standard.gifti.xml

Methods in mgui.io.standard.gifti.xml that return Mesh3DInt

Modifier and Type	Method	Description
Mesh3DInt	GiftiXMLHandler.getMesh()	Returns the loaded surface.

Constructors in mgui.io.standard.gifti.xml with parameters of type Mesh3DInt

Constructor	Description
GiftiXMLHandler(Mesh3DInt mesh)	Instantiate this handler with a pre-defined mesh.

Uses of Mesh3DInt in mgui.morph.sections

Methods in mgui.morph.sections that return Mesh3DInt

Modifier and Type	Method	Description
Mesh3DInt	MorphEngine.getMorphMesh(SectionSet3DInt morphSections, double weight_thres)	Given a set of sections, map nodes using radial rep and then triangulate between sections based upon this mapping, and each polygon's direction (CW or CCW)