Thanks Mark for your help
Sent from my iPhone
> On Oct 16, 2014, at 10:41 AM, Mark Jenkinson <[log in to unmask]> wrote:
>
> Hi,
>
> You need the non-diffusion weighted (b=0) image.
> You need to identify that yourself and extract it from the diffusion image series.
> Look at the FSL wiki and FSL Course materials for more information about this if you are not sure.
>
> All the best,
> Mark
>
>> On 10 Oct 2014, at 11:46, Howayda Mrad <[log in to unmask]> wrote:
>>
>> Dear fsl experts,
>>
>> Once I converted my DICOM images for a single patient using mricron(dcm2nii) and as output format “compressed FSL 4D NIfTI nii” I receive the below message:
>> Converting/users/macintoshhd/Desktop/DICOM/IM_0001
>> Data will be exported to /users/macintoshhd/Desktop/DICOM
>> Validating 2896 potential DICOM images.
>> Dcm Error: not a DICOM image: /users/macintoshhd/Desktop/DICOM/.DS_store
>> Found 2890 DICOM images.
>> Converting 170/2890 volumes:1
>> IM_0001->s401a1000.nii
>> 22282240 16
>> GZip…s401a1000.nii.gz
>> Reorienting as /Users/macintoshhd/Desktop/DICOM/os401a1000.nii.gz
>> GZip…os401a1000.nii.gz
>> Cropping NIfTI/Analyze image /users/macintoshhd/Desktop/DICOM/os401a1000.nii.gz
>> GZip…cos401a1000.nii.gz
>> Warning: Number of slices per volume (85) appears different than reported in DICOM header (80)
>> Perhaps the selected folder only has some of the images
>> Converting 2890/2890 volumes: 34
>> IM_0173->s601a1000.nii
>> 2621440 16
>> GZip… s601a1000.nii.gz
>> Removed DWI from DTI scan – saving volumes 1..33
>> Conversion completed in 33474 ms
>>
>> Which Input image i should choose for BET - Brain Extraction Tool to use it in DTIFIT ?
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