Image segmentation based on MATLAB Snake model image segmentation

clear all;
close all;
Img = imread('twocells.bmp');  % The same cell image in the paper is used here
Img=double(Img(:,:,1));
sigma=1.5;    % scale parameter in Gaussian kernel for smoothing.
G=fspecial('gaussian'.15,sigma);
Img_smooth=conv2(Img,G,'same');  % smooth image by Gaussiin convolution
[Ix,Iy]=gradient(Img_smooth);
f=Ix.^2+Iy.^2;
g=1./ (1+f);  % edge indicator function.

epsilon=1.5; % the papramater in the definition of smoothed Dirac function

timestep=5;  % time step
mu=0.2/timestep;  % coefficient of the internal (penalizing) energy term P(\phi)
          % Note: the product timestep*mu must be less than 0.25 for stability!

lambda=5; % coefficient of the weighted length term L(\phi)
alf=1.5;  % coefficient of the weighted area term A(\phi);
          % Note: Choose smaller value for weak object bounday, such as the cell image in this demo.


% define initial level set function (LSF) as -c, 0, c at points outside, on
% the boundary, and inside of a region R, respectively.
[nrow, ncol]=size(Img);  
c0=4;   
initialLSF=c0*ones(nrow,ncol);
w=8;
initialLSF(w+1:end-w, w+1:end-w)=0;  % zero level set is on the boundary of R. 
                                     % Note: this can be commented out. The intial LSF does NOT necessarily need a zero level set.
                                     
initialLSF(w+2:end-w- 1, w+2: end-w- 1)=-c0; % negative constant -c inside of R, postive constant c outside of R. u=initialLSF; figure; imagesc(Img); colormap(gray); hold on; [c,h] = contour(u,[0 0].'r');                          
title('Initial contour');

% start level set evolution
for n=1:300
    u=EVOLUTION(u, g ,lambda, mu, alf, epsilon, timestep, 1);  
    pause(0.001);
    if mod(n,20)= =0imagesc(Img); colormap(gray); hold on; [c,h] = contour(u,[0 0].'r'); 
        iterNum=[num2str(n), ' iterations'];        
        title(iterNum);
        hold off;
    end
end
% define initial level set function (LSF) as -c, 0, c at points outside, on
% the boundary, and inside of a region R, respectively.
[nrow, ncol]=size(Img);  
c=4;
initialLSF=c*ones(nrow,ncol);
w=10;
initialLSF(w+1:end-w, w+1:end-w)=0;  % zero level set is on the boundary of R. 
                                     % Note: this can be commented out. The intial LSF does NOT necessarily need a zero level set.
                                     
initialLSF(w+2:end-w- 1, w+2: end-w- 1)=-c; % negative constant -c inside of R, postive constant c outside of R. u=initialLSF; figure; imagesc(Img, [0.255]); colormap(gray); hold on; [c,h] = contour(u,[0 0].'r');                          
title('Initial contour');


% start level set evolution
for n=1:500
    u=EVOLUTION(u, g ,lambda, mu, alf, epsilon, timestep, 1);  
    pause(0.001);
    if mod(n,20)= =0
        imagesc(Img, [0.255]); colormap(gray); hold on; [c,h] = contour(u,[0 0].'r'); 
        iterNum=[num2str(n), ' iterations'];        
        title(iterNum);
        hold off;
    end
end
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Version: 2014 a