Background of generated dynamic image about alzheimer-project HOT 10 CLOSED

We don't have your mentioned issue. Do you show your image in Greyscale?

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yes, the max value is 255 and the min is 0

from alzheimer-project.

Did you do the preprocessing of the input image? and is the size of the input 3D image D, H, W, 1?

from alzheimer-project.

Did you do the preprocessing of the input image? and is the size of the input 3D image D, H, W, 1?

I checked my script, I think the output should be DxHxWx1.

from alzheimer-project.

Did you do the preprocessing of the input image? and is the size of the input 3D image D, H, W, 1?

Try RGB to show the image.

from alzheimer-project.

Did you do the preprocessing of the input image? and is the size of the input 3D image D, H, W, 1?

No, the input should be 1, H, W, D. I used the pytroch default setting on the channel.

I found that the shape printed in ''ADNI2_MRI_AD_niiData.ipynb'' file is 110,110,110,1，and the code in ''Dynamic_image_Vgg11.ipynb'' file is just "im = np.load(full_path) im = get_dynamic_image(im) "; Is the shape of "im" 1,H,W,D?

What's your current output size?

from alzheimer-project.

Did you do the preprocessing of the input image? and is the size of the input 3D image D, H, W, 1?

No, the input should be 1, H, W, D. I used the pytroch default setting on the channel.

I found that the shape printed in ''ADNI2_MRI_AD_niiData.ipynb'' file is 110,110,110,1，and the code in ''Dynamic_image_Vgg11.ipynb'' file is just "im = np.load(full_path) im = get_dynamic_image(im) "; Is the shape of "im" 1,H,W,D?

What's your current output size?

Input 3D CT image is D,H,W,1 and output is H,W

from alzheimer-project.

Did you do the preprocessing of the input image? and is the size of the input 3D image D, H, W, 1?

No, the input should be 1, H, W, D. I used the pytroch default setting on the channel.

I found that the shape printed in ''ADNI2_MRI_AD_niiData.ipynb'' file is 110,110,110,1，and the code in ''Dynamic_image_Vgg11.ipynb'' file is just "im = np.load(full_path) im = get_dynamic_image(im) "; Is the shape of "im" 1,H,W,D?

What's your current output size?

Input 3D CT image is D,H,W,1 and output is H,W

OK, I think the input is correct, try this
im = np.expand_dims(im,0)
im = np.concatenate([im,im,im], 0)
I extended the image to a RGB-style image (3, H, W). You need to transpose (H, W, 3) then imshow it. Let me know does it work.

from alzheimer-project.

Did you do the preprocessing of the input image? and is the size of the input 3D image D, H, W, 1?

No, the input should be 1, H, W, D. I used the pytroch default setting on the channel.

I found that the shape printed in ''ADNI2_MRI_AD_niiData.ipynb'' file is 110,110,110,1，and the code in ''Dynamic_image_Vgg11.ipynb'' file is just "im = np.load(full_path) im = get_dynamic_image(im) "; Is the shape of "im" 1,H,W,D?

What's your current output size?

Input 3D CT image is D,H,W,1 and output is H,W

OK, I think the input is correct, try this im = np.expand_dims(im,0) im = np.concatenate([im,im,im], 0) I extended the image to a RGB-style image (3, H, W). You need to transpose (H, W, 3) then imshow it. Let me know does it work.

After the dynamic image processing, then condut the aformentioned operation.

from alzheimer-project.

Did you do the preprocessing of the input image? and is the size of the input 3D image D, H, W, 1?

No, the input should be 1, H, W, D. I used the pytroch default setting on the channel.

I found that the shape printed in ''ADNI2_MRI_AD_niiData.ipynb'' file is 110,110,110,1，and the code in ''Dynamic_image_Vgg11.ipynb'' file is just "im = np.load(full_path) im = get_dynamic_image(im) "; Is the shape of "im" 1,H,W,D?

What's your current output size?

Input 3D CT image is D,H,W,1 and output is H,W

OK, I think the input is correct, try this im = np.expand_dims(im,0) im = np.concatenate([im,im,im], 0) I extended the image to a RGB-style image (3, H, W). You need to transpose (H, W, 3) then imshow it. Let me know does it work.

I turned the grayscale map into an RGB image, but it seems that the result has not changed. And I check the value again, founding that the background value is 135, and the value 0 is in other location. Maybe is the reason for CT image, Thank you very much for your guidance.

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