%% Computer Assisted Retinal Blood Vessel Segmentation Algorithm

% Developed and Copyrighted by Tyler L. Coye (2015)

%
% Read Image
I = imread('/Users/Bless/Desktop/untitled folder/mini project.jpg');

% Resize image for easier computation

B = imresize(I, [584 565]);

% Read image
im = im2double(B);

% Convert RGB to Gray via PCA

lab = rgb2lab(im);
f = 0;
wlab = reshape(bsxfun(@times,cat(3,1-f,f/2,f/2),lab),[],3);
[C,S] = pca(wlab);
S = reshape(S,size(lab));
S = S(:,:,1);
gray = (S-min(S(:)))./(max(S(:))-min(S(:)));

%% Contrast Enhancment of gray image using CLAHE

J = adapthisteq(gray,'numTiles',[8 8],'nBins',128);

%% Background Exclusion
% Apply Average Filter

h = fspecial('average', [9 9]);
JF = imfilter(J, h);
figure, imshow(JF)

% Take the difference between the gray image and Average Filter
Z = imsubtract(JF, J);
figure, imshow(Z)

%% Threshold using the IsoData Method

level=isodata(Z); % this is our threshold level

%% Convert to Binary
BW = im2bw(Z, level-.008);

%% Remove small pixels

BW2 = bwareaopen(BW, 100);

%% Overlay
BW2 = imcomplement(BW2);
out = imoverlay(B, BW2, [0 0 0]);
figure, imshow(out)