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open-discussion > IBSR in Nifti format
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Oct 30, 2015 09:10 PM | Roberto Souza - UNICAMP
IBSR in Nifti format
Hi,
I am trying to use the IBSR data (20Nomals) in skull-stripping experiments, and I have a few doubts abou the dataset.
More specifically, I am using the folders "20Normals_T1" (raw data) and "20Normals_T1_brain" (brain mask).
- Does anyone have the data in Nifti format? I was able to read them and save as Nifti (I can provide the data if it is of interest), but I left the Nifti headers blank, since I
don't have experience filling them. The Nifti file I generated didn't work on Freesurfer only on FSL. Maybe freesurfer needs the header information to work...
- The header information in the "20NormalsT1_brain" doesn't seem to be correct. It contains the shape of the images, which usually are 256x256xW, but when I read the .buchar file
I get something that is 256x256x(W+2), i.e. two more slice than the header says.
- In the read me file, it says that "Note that the segmented images have less slices than the T1 image data", but I didn't find that to be true, except for file *1_24*.
Can anyone help me?
I would really appreciate it.
Best regards,
Roberto Souza
I am trying to use the IBSR data (20Nomals) in skull-stripping experiments, and I have a few doubts abou the dataset.
More specifically, I am using the folders "20Normals_T1" (raw data) and "20Normals_T1_brain" (brain mask).
- Does anyone have the data in Nifti format? I was able to read them and save as Nifti (I can provide the data if it is of interest), but I left the Nifti headers blank, since I
don't have experience filling them. The Nifti file I generated didn't work on Freesurfer only on FSL. Maybe freesurfer needs the header information to work...
- The header information in the "20NormalsT1_brain" doesn't seem to be correct. It contains the shape of the images, which usually are 256x256xW, but when I read the .buchar file
I get something that is 256x256x(W+2), i.e. two more slice than the header says.
- In the read me file, it says that "Note that the segmented images have less slices than the T1 image data", but I didn't find that to be true, except for file *1_24*.
Can anyone help me?
I would really appreciate it.
Best regards,
Roberto Souza
Nov 3, 2015 02:11 PM | Andrew Worth
RE: IBSR in Nifti format
Hi Roberto,
Many researchers have used the 20Normals in their publications. Somebody must have converted them to NIfTI!
Andy.
Many researchers have used the 20Normals in their publications. Somebody must have converted them to NIfTI!
Andy.