How do I stitch multiple images in a spiral order

Hi I am trying to stitch images in a spiral order starting from the center moving outward.

I have anywhere from 16-100 microscope images that need to be stitched together to form a square. The microscope takes images in a spiral and are labeled in sequential order of how they are taken. The images are named like so, AS-PC-7173_200824160001_A01f00d0, AS-PC-7173_200824160001_A01f01d0, AS-PC-7173_200824160001_A01f02d0,... the bolded letters represent the image number so for example, a 4x4 montage image will have images in order from 00-015. I am currently using the imtile() function but I have to manually rename each image in the position the function stitches them which is right to left and top to bottom.

This is a representation of how the images are taken, 0 being the first image and 63 being the last. In order for my imtile() function to work I rename image 63 (AS-PC-7173_200824160001_A63f01d0 as 01, image 62 as 02, image 61 as 03, and so on.

The only code I have right now is as follows:

myFolder = '/Users/...';

fileFolder = fullfile(myFolder,'*.tif');

imds = imageDatastore(fileFolder);

stitched = imtile(imds);

imshow(stitched);

Is there a way to have matlab stitch images in an order of my choosing or even a way to rename my images in the order imtile() would stitch. (Rename them as 63, 63, 61, 60, 59, 58, 57, 56, 36, 35,...

Thanks for the help!

[Image Analyst]

Just make up that array going out all the way to 100 (10-by-10), then it should be trivial. If you can't figure it out, give us code where you assign the 10-by-10 array and we'll do it.

[Alexander Hsu]

Thanks for you help. My code is as follows. I have written it so that it renames files in the order I have specified in the array. I'm not sure how to call image files for the imtile() function using my array. My code works but is there a way to skip renaming of files and have my array specify the way imtile() calls my images??

a = [99 98 97 96 95 94 93 92 91 90 64 63 62 61 60 59 58 57 56 89 65 36 35 34 33 32 31 30 55 88 66 37 16 15 14 13 12 29 54 87 67 38 17 4 3 2 11 28 53 86 68 39 18 5 0 1 10 27 52 85 69 40 19 6 7 8 9 26 51 84 70 41 20 21 22 23 24 25 50 83 71 42 43 44 45 46 47 48 49 82 72 73 74 75 76 77 78 79 80 81];

n = numel(a);

for i=1:n

if a(i)<10

filenum1 = ['0', num2str(a(i))];

else

filenum1 = [num2str(a(i))];

end

filenum2 = num2str(i-1);

if i<11

filenum2 = ['0', filenum2];

else

filenum2 = [num2str(i-1)];

end

file = [pwd '/AS-PC-7173_200505000003/AS-PC-7173_200505000003_A01f'];

folder = [pwd '/AS-PC-7173_200505000003n/AS-PC-7173_200505000003_A01f'];

filename = [file, filenum1 'd0.TIF'];

img = imread(filename);

newfilename = [folder, filenum2,'.TIF'];

imwrite(img, newfilename);

end

myFolder = [pwd '/AS-PC-7173_200505000003n/'];

fileFolder = fullfile(myFolder,'*.tif');

imds = imageDatastore(fileFolder);

montage = imtile(imds);

imshow(montage);

Answer 1

[jonas]

I would just put each image in a cell array, A(1)... A(n) based on their original name.

Then it's just a matter of indexing. Here I've made 10000 2x2 RGB images as an example, using spiral() to make the indices.

for i = 1:10000
    A{i} = repmat(i/10000,2,2,3);
end
new_id = spiral(100);
A_new = A(new_id);
I = cell2mat(A_new);
imshow(I)