help > DICOM to NIFTI
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May 24, 2017 06:05 AM | Gyan Raj Koirala
DICOM to NIFTI
Hello,
I tried to convert DICOM file to NIFTI using MRIcon through the dcm2nii application in the following steps:
1. Make a different folder having all (256) dicom files.
2. Select all (256) the dicom files to dcm2nii.
After a brief processing, it results three .nii.gz files as follows:
20130204_17443618NSFUSBRAINPREOPs1000a1001.nii.gz
co20130204_17443618NSFUSBRAINPREOPs1000a1001.nii.gz
o20130204_17443618NSFUSBRAINPREOPs1000a1001.nii.gz
Is this process okay?
Now, I would like to process the NIFTI (nii.gz) file using BrainSuite for source reconstruction but I am not quite sure on which file should I compute source reconstruction.
Please suggest me.
Thanks in advance.
I tried to convert DICOM file to NIFTI using MRIcon through the dcm2nii application in the following steps:
1. Make a different folder having all (256) dicom files.
2. Select all (256) the dicom files to dcm2nii.
After a brief processing, it results three .nii.gz files as follows:
20130204_17443618NSFUSBRAINPREOPs1000a1001.nii.gz
co20130204_17443618NSFUSBRAINPREOPs1000a1001.nii.gz
o20130204_17443618NSFUSBRAINPREOPs1000a1001.nii.gz
Is this process okay?
Now, I would like to process the NIFTI (nii.gz) file using BrainSuite for source reconstruction but I am not quite sure on which file should I compute source reconstruction.
Please suggest me.
Thanks in advance.
May 25, 2017 08:05 PM | Peter Stiers - Maastricht University, Faculty of Psychology and Neuroscience
RE: DICOM to NIFTI
Hi,
This is probably a T1 weighted anatomical image -- which are usually not acquired in the standard orientation (axial slices). MRIcron generates two additional copies of the volume, prefixed by '0', meaning that it is re-oriented to standard space, and 'co', meaning that it is additonally clipped to have an image with considerable amount of not brain volume cut out. You can use any of the three for further processing, but the re-oriented one is preferable, since many preprocessing packages assume a standard oriented image.
Best regards,
Peter
This is probably a T1 weighted anatomical image -- which are usually not acquired in the standard orientation (axial slices). MRIcron generates two additional copies of the volume, prefixed by '0', meaning that it is re-oriented to standard space, and 'co', meaning that it is additonally clipped to have an image with considerable amount of not brain volume cut out. You can use any of the three for further processing, but the re-oriented one is preferable, since many preprocessing packages assume a standard oriented image.
Best regards,
Peter