Code covered by the BSD License  

Highlights from
Shape Context Based Corresponding Point Models

• DrawContourGui(varargin) This GUI DrawContourGui can be used to draw a contour line on
• manually_warp_images(varargin) MANUALLY_WARP_IMAGES, is a GUI which shows the controlpoint grid used
• showcs3(varargin) SHOWCS3 M-file for showcs3.fig
• showcs3(varargin) Function showcs3(V) will display x,y,z cross sections of the volume V
• A=imresize3d(V,scale,tsize,nt... This function resizes a 3D image volume to new dimensions
• A=imresize3d(V,scale,tsize,nt... This function resizes a 3D image volume to new dimensions
• A=imresize3d(V,scale,tsize,nt... This function resizes a 3D image volume to new dimensions
• AAM_2D_example.m This Script shows an example of a working basic Active Appearance Model (AAM),
• AAM_3D_train_example.m Train an Active Appearance Model of the JAW
• AAM_ApplyModel2D(ItestLarge,t... We start at the coarse scale
• AAM_MakeShapeModel2D(Training... Number of datasets
• AAM_MakeShapeModel3D(Training... Number of datasets
• AAM_Weights2D(TrainingData,Sh...
• AAM_Weights3D(TrainingData,Sh...
• ASM_2D_example.m This Script shows an example of an working basic Active Shape Model,
• ASM_3D_train_example.m Train an active Shape Model of the JAW
• ASM_ApplyModel2D(Itest,tform,... Optimalization
• ASM_MakeShapeModel2D(Training... Number of datasets
• ASM_MakeShapeModel3D(Training... Number of datasets
• AppearanceData=AAM_MakeAppear... Make the gray-level Appearance Model
• AppearanceData=AAM_MakeAppear... Make the gray-level Appearance Model
• AppearanceData=ASM_MakeAppear... Gray-Level Appearance Model
• AppearanceData=ASM_MakeAppear... Gray-Level Appearance Model
• C=Features2CostMatrix(F1,F2,P...
• C=minmatrix(A)
• Dlocal=jacobiandet_transform_... Determinant of the Jacobian of the transformation grid
• E=strain(Ux,Uy,Uz) Calculate the Eulerian strain from displacement images
• Example2D.m This is an Example of using Shape-Context to create a corresponding
• Example3D.m This is an Example of using Shape-Context to create a corresponding
• F=backwards2forwards(B) This function will turn a backward transformation field in to a
• F=getHistogramFeatures(Points...
• Horn_Align_ICP(P1,P2,P2L) Center data to remove translation
• I3=movepixels(I1,T,mode,Image... This function movepixels, will (backwards) translate the pixels
• I=affine_registration_image(p... This function affine_registration_image, uses affine transfomation of the
• I=imgaussian(I,sigma,siz) IMGAUSSIAN filters an 1D, 2D color/greyscale or 3D image with an
• I=imgaussian(I,sigma,siz) IMGAUSSIAN filters an 1D, 2D color/greyscale or 3D image with an
• I=imgaussian(I,sigma,siz) IMGAUSSIAN filters an 1D, 2D color/greyscale or 3D image with an
• I=imgaussian(I,sigma,siz) IMGAUSSIAN filters an 1D, 2D color/greyscale or 3D image with an
• I_texture=AAM_Vector2Appearan...
• I_texture=AAM_Vector2Appearan...
• I_texture=drawObject(base_poi... Draw the contour as one closed line white line in an image, and make
• I_texture=drawObject(base_poi... Draw the contour as one closed line white line in an image, and make
• Igrid=make_grid_image(Spacing... This function creates a uniform 2d or 3D image of grid
• Iout=affine_transform(Iin,M,m... Function affine_transform, is a wrapper of the (mex) functions
• Iout=affine_transform_2d_doub... Affine transformation function (Rotation, Translation, Resize)
• Iout=movepixels_2d_double(Iin... This function movepixels, will translate the pixels of an image
• J=warp_tetrahedron(I,xyz,uvw,... This function WARP_TETRAHEDRON will perform a piecewise 3D linear image
• J=warp_tetrahedron_double(I,x...
• J=warp_triangle(I,xy,uv,Image... This function WARP_TRIANGLE will perform a piecewise linear 2D image warp
• J=warp_triangle_double(I,xy,u...
• M=make_transformation_matrix(... This function make_transformation_matrix.m creates an affine
• N1=SmoothContourNormals2D(N1,...
• N=ASM_GetContourNormals2D(V,L... This function calculates the normals, of the contour points
• N=ASM_GetContourNormals3D(V,F...
• N=GetContourNormals2D(V,L) This function calculates the normals, of the contour points
• N=patchnormals(FV) This function PATCHNORMALS calculates the normals of a triangulated
• O_error=bspline_registration_... Function Registration_image. This function will create
• O_trans=bspline_grid_fitting(... calculate which is the closest point on the lattic to the top-left
• O_trans=make_init_grid(Spacin... This function creates a uniform 2d or 3D b-spline control grid
• R=AAM_MakeSearchModel2D(Shape... Structure which will contain all weighted errors of model versus real
• R=AAM_MakeSearchModel3D(Shape... Structure which will contain all weighted errors of model versus real
• SelectPosition(varargin) Detect callback and execute callback function
• ShapeAppearanceData=AAM_Combi... This functions combines the shape and appearance of the objects, by
• ShapeAppearanceData=AAM_Combi... This functions combines the shape and appearance of the objects, by
• Storage=ItterativeShapeContex... % Storage = ItterativeShapeContext(P1,P2,PL1,PL2,S,R,Options)
• Tlocal=bspline_transform_poin... Make row vectors of input coordinates
• Tlocal=bspline_transform_poin... Make row vectors of input coordinates
• V=ASM_align_data_inverse3D(V,...
• Vertices=AAM_align_data_inver... Correct for rotation
• Vertices=AAM_align_data_inver... Compute the rotation matrix
• Volume=polygon2voxel(FV,Volum... This function POLYGON2VOXEL will convert a Triangulated Mesh into a
• Volume=polygon2voxel(FV,Volum... This function POLYGON2VOXEL will convert a Triangulated Mesh into a
• Volume=polygon2voxel(FV,Volum... This function POLYGON2VOXEL will convert a Triangulated Mesh into a
• Volume=polygon2voxel_double(F... List with all vertices coordinates of a face
• Volume=polygon2voxel_double(F... List with all vertices coordinates of a face
• Volume=polygon2voxel_double(F... List with all vertices coordinates of a face
• W=bspline_coefficients(u,v,w) Calculate influences of all neighborh b-spline knots
• Y=transformvertices(X,M) Transform the vertices with 3x3 or 4x4 matrix M
• [Err,Udet]=DiscreteJacobian(B...
• [Evalues, Evectors, x_mean]=P... PCA using Single Value Decomposition
• [Evalues, Evectors, x_mean]=P... PCA using Single Value Decomposition
• [Evalues, Evectors1, Evectors... Weighted PCA using Single Value Decomposition
• [Fx,Fy]=backwards2forwards_2d... This function will turn a backwards transformation field into
• [I1,Faces,Vertices,Facesl,Ver... Read the Image - argument list modified
• [I1,Lines,Vertices,Linesl,Ver... Read the Image
• [Iout,Tx,Ty]=bspline_transfor... Bspline transformation grid function
• [J,T]=bspline_transform(O,I,S... Function bspline_transform, is a wrapper of the mex
• [Lines,Vertices,Objects]=isoc... This function ISOCONTOUR computes the isocontour geometry for
• [Lines,Vertices,Objects]=isoc... This function ISOCONTOUR computes the isocontour geometry for
• [Matches,Cost]=ShapeContext(P... % [Matches,Cost]=ShapeContext(P1,P2,PL1,PL2,Options)
• [Nx,Ny,Nz]=patchnormals_doubl...
• [O_error, O_grad]=bspline_reg... Function registration_gradient. This function will calculate a registration
• [O_error, O_grad]=jacobiandet... Convert Grid vector to grid matrix
• [O_error, O_grad]=jacobiandet... Gradient and error of the Jacobian of the transformation grid
• [O_new,Spacing]=refine_grid(O... Refine image transformation grid of 1D b-splines with use of spliting matrix
• [O_penalty, O_grad]=penalties... This function calculates the 2D or 3D equivalent of the 2D
• [O_trans,Spacing,Xreg]=point_... This function creates a 2D or 3D b-spline grid, which transform space to
• [O_trans2,Spacing2]=inversegr... Calculates the (numeric) inverse of the current b-spline grid
• [O_transO,Spacing]=MakeDiffeo... This function MakeDiffeomorphic will make the b-spline grid diffeomorphic
• [Points1n,Points2n]=DistanceF... This function DistanceFieldCP can be used to find closest points between
• [Pointsn,Pointsln]=NormalizeP...
• [T,Xreg,X1,X2]=point_registra... This function creates a 2D or 3D b-spline grid, which transform space to
• [Tlocal,Dlocal]=bspline_trans... If Spacing and points are not an integer, we can not use fast look up tables,
• [V1,V2]=get_example_data get_example_data is used to make some rigid and nonrigid transformed
• [Vertices,Lines]=LoadDataSetN... LoadDataSetNiceContour, Load the ContourPoints and Photo of a dataset
• [Vertices,tform]=AAM_align_da... Remove rotation and translation and scale : Procrustes analysis
• [Vertices,tform]=AAM_align_da... Remove rotation and translation and scale : Procrustes analysis
• [Vertices,tform]=ASM_align_da... Aligns the contours positions, center the data and remove rotation
• [Vertices,tform]=ASM_align_da... Aligns the contours positions, center the data and remove rotation
• [e,egrad]=affine_registration... This function affine_registration_error, uses affine transfomation of the
• [greyvector,J]=AAM_Appearance... Transform the hands images first into the mean texture image, and than
• [gt,dgt]=ASM_getProfileAndDer... This function getProfileAndDerivatives, samples the image on lines
• [gtc,dgtc]=ASM_getProfileAndD... This function getProfileAndDerivatives, samples the image on lines
• [hiso,FV]=plot3t(varargin) PLOT3T Plots a (cylindrical) 3D line with a certain thickness.
• [hist12, hist1, hist2]=mutual... This function makes a 2D joint histogram of 1D,2D...ND images
• [n2,dis]=uniform_sample_line(...
• [pos,I_model,I_segment]=AAM_A... Loop through the 4 image size scales
• [posV,I_segment]=ASM_ApplyMod... Optimalization
• [s_Trans, s_Rotation, s_Scale... This function gives scaling values for different parameters, such as
• [t,I]=image_difference(V,U,ty... This function gives a registration error and error image I between the two
• [uv xy]=PreProcessCp2tform(uv... When CP2TFORM is used in piecewise linear mode, it uses triangulation
• absoluteOrientationQuaternion...
• addpaths.m add all needed function paths
• err=squared_difference_double...
• fminlbfgs.m
• g=AAM_NormalizeAppearance2D(g... Normalize appearance data grey values
• g=AAM_NormalizeAppearance3D(g...
• greyvector=AAM_Appearance2Vec... Transform the hands images first into the mean texture image, and than
• image_interpolation_backward(... This function is used to transform an 2D image, in a backwards way with an
• image_interpolation_backward(... This function is used to transform an 2D image, in a backwards way with an
• image_interpolation_forward(I... This function is used to transform an 2D image, in a forwards way with an
• image_interpolation_forward2d... This function is used to transform an 2D image, in a forwards way with an
• image_registration(Imoving,Is... This function image_registration is the most easy way to register two
• interpfast(I,xi,yi,zi,type)
• interpfast(I,xi,yi,zi,type)
• maxNumCompThreads(varargin) maxNumCompThreads returns the number of available CPU cores, works with
• munkres(costMat) MUNKRES Munkres (Hungarian) Algorithm for Linear Assignment Problem.
• pos=ASM_align_data_inverse2D(... Correct for rotation
• posV=ASM_ApplyModel3Dblack(It... Optimalization
• x=linspace_multi(d1,d2,n) LINSPACE Linearly spaced vector, but then all pairs in two columns
• x=linspace_multi(d1,d2,n) LINSPACE Linearly spaced vector, but then all pairs in two columns
• AAM_3D_apply_example.m
• ASM_3D_apply_example.m
• compile_c_files.m
• compile_c_files.m
• compile_c_files.m
• compile_c_files.m
• example_2d_affine.m
• example_2d_nonrigid_1.m
• example_2d_nonrigid_2.m
• example_2d_nonrigid_3.m
• example_3d_affine.m
• example_3d_nonrigid.m
• View all files