Rotating the bvecs for a rigid transformation is not that hard, but it
would require some custom (and complicated) code to rotate them for a
nonlinear transformation. What you are currently doing is not going to
produce a valid analysis where the diffusion gradient directions match the
diffusion data.
Peace,
Matt.
On 10/10/13 2:53 AM, "Stamatios Sotiropoulos" <[log in to unmask]> wrote:
>Hi Stefano
>
>Something went wrong and it has not finished successfully, you need to
>look into the "logs" folders and look for the error logs (.e* files).
>
>However, you still seem to insist on doing bedpostx in MNI space
>regardless of my yesterday's suggestion. Any good reason for doing that?
>There are other complications that you need to consider (e.g. you need to
>rotate the bvecs to account for rotational changes between spaces).
>Unless you have a good idea of why you want to go down this route, it
>does not worth the extra effort.
>
>Cheers
>Stam
>
>
>On 10 Oct 2013, at 08:40, Stefano wrote:
>
>> Hi list,
>>
>> I have coregistated dwi data in MNI space by using FNIRT. Before FA
>>maps and after MD and data.
>>
>> Next, I have performed bedpostx in MNI space.
>>
>> At the end of processing, I have these folder:
>>
>> bvals
>> bvecs
>> commands.txt
>> diff_slices
>> logs
>> monitor
>> nodif_brain_mask.nii.gz
>> xfms
>>
>> and in diff_slice:
>>
>> data_slice_0000
>> data_slice_0001
>> data_slice_0002
>> data_slice_0003
>> data_slice_0004
>> data_slice_0005
>> data_slice_0006
>> data_slice_0007
>> data_slice_0008
>> data_slice_0009
>> data_slice_0010
>> data_slice_0011
>> data_slice_0012
>> data_slice_0013
>> data_slice_0014
>> data_slice_0015
>> data_slice_0016
>> data_slice_0017
>> data_slice_0018
>> data_slice_0019
>> data_slice_0020
>> data_slice_0021
>> data_slice_0022
>> data_slice_0023
>> data_slice_0024
>> data_slice_0025
>> data_slice_0026
>> data_slice_0027
>> data_slice_0028
>> data_slice_0029
>> data_slice_0030
>> data_slice_0031
>> data_slice_0032
>> data_slice_0033
>> data_slice_0034
>> data_slice_0035
>> data_slice_0036
>> data_slice_0037
>> data_slice_0038
>> data_slice_0039
>> data_slice_0040
>> data_slice_0041
>> data_slice_0042
>> data_slice_0043
>> data_slice_0044
>> data_slice_0045
>> data_slice_0046
>> data_slice_0047
>> data_slice_0048
>> data_slice_0049
>> data_slice_0050
>> data_slice_0051
>> data_slice_0052
>> data_slice_0053
>> data_slice_0054
>> data_slice_0055
>> data_slice_0056
>> data_slice_0057
>> data_slice_0058
>> data_slice_0059
>> data_slice_0060
>> data_slice_0061
>> data_slice_0062
>> data_slice_0063
>> data_slice_0064
>> data_slice_0065
>> data_slice_0066
>> data_slice_0067
>> data_slice_0068
>> data_slice_0069
>> data_slice_0070
>> data_slice_0071
>> data_slice_0072
>> data_slice_0073
>> data_slice_0074
>> data_slice_0075
>>
>> What's happened?
>>
>> Thank you very much.
>>
>> Best wishes,
>>
>>
>> Stefano
>>
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