Changing image background from black to white

Hi,

I have chromosomes image and I segmented this image to multiple chromosome images (46 images). But after segmentation I got these images in black background. How I can changes the balck background to white?

Answer 1

[Ilian]

You can try using connected components. With relatively simple problems this could work:

img_original = imread('image.jpeg'); % load image
img_pad = padarray(img_original,[10 10], 0); % pad to simplify cc

threshold = 35;
img_pad(img_pad<threshold) = 0; % threshold image
img_pad(img_pad>=threshold) = 1;

img_inverted = 1-img_pad; % invert image

CC = bwconncomp(img_inverted,4); % find connected components

pixelList = []; % list of pixel in background

for i = 1:length(CC.PixelIdxList)
     % discard small components that are part of the chromosome
    if length(CC.PixelIdxList{1,i}) > 1000 
       pixelList = [pixelList cell2mat(CC.PixelIdxList(i))'] ;
    end
end

mask = zeros(size(img_pad)); % create a mask
mask(pixelList) = 1;
mask = mask(11:end-10,11:end-10); % remove padding

img_corrected = img_original;
img_corrected(logical(mask)) = 255; % set background pixels to white

% PLOT
figure;
subplot(1,4,1); imagesc(img_original); axis image; colormap gray
subplot(1,4,2); imagesc(img_inverted); axis image; colormap gray
subplot(1,4,3); imagesc(mask); axis image; colormap gray
subplot(1,4,4); imagesc(img_corrected); axis image; colormap gray
            

[Mona Al-Kharraz]

I don't know how I can thank you. You help me many thanks

[Shafiullah Soomro]

how can i do same for lung dataset images.