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help > RE: cropped anatomical image after acpcdetect
Dec 17, 2019 04:12 PM | Babak Ardekani
RE: cropped anatomical image after acpcdetect
Originally posted by sam1:
Hi Sam,
Is it possible that anat.nii did not cover the entire head to begin with? Another possibility is that MSP and AC/PC detection simply failed for this case. You can check that by looking at the *PPM images which show the detected landmarks and the MSP. Regarding dimensions, acpcdetect allows you to explicitly specify the output dimensions (both matrix sizes and voxel sizes).
Babak
Hello,
I've used the command acpcdetect -i anat.nii on my anatomical image, and the outputted anat_RAS.nii came cropped at the top of the head. Is this to be expected? I tried playing with the different options but the image produced is always slightly cropped at the top...
When I load both the anat and anat_RAS in fsleyes both images have the same dim1, dim2 and dim3, but they have different X,Y, Z sizes.
Best regards,
Sam
I've used the command acpcdetect -i anat.nii on my anatomical image, and the outputted anat_RAS.nii came cropped at the top of the head. Is this to be expected? I tried playing with the different options but the image produced is always slightly cropped at the top...
When I load both the anat and anat_RAS in fsleyes both images have the same dim1, dim2 and dim3, but they have different X,Y, Z sizes.
Best regards,
Sam
Hi Sam,
Is it possible that anat.nii did not cover the entire head to begin with? Another possibility is that MSP and AC/PC detection simply failed for this case. You can check that by looking at the *PPM images which show the detected landmarks and the MSP. Regarding dimensions, acpcdetect allows you to explicitly specify the output dimensions (both matrix sizes and voxel sizes).
Babak
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| Title | Author | Date |
|---|---|---|
| sam1 | Dec 17, 2019 | |
| Babak Ardekani | Dec 17, 2019 | |