Hi,
>Is it right?
Yes.
>how should I apply the epi_reg to multiple images
If I understand you correctly, you may want to take the output of epi_reg
and use applywarp with it.
Cheers,
Andreas
Am 10.08.14 10:22 schrieb "Hiroki Kurashige" unter <[log in to unmask]>:
>Hi Mark,
>
>Thank you for the reply.
>I will try to use epi_reg.
>
>I have several questions about epi_reg.
>
>To make a fieldmap image in rad/s for epi_reg, I think I should do
>fsl_prepare_fieldmap because my data were obtained using
>gre_field_mapping sequence of Siemens scanner.
>I have (two) magnitude data and one so-called presubtracted phase data
>(which may be SPM term).
>I guess that the phase_image in fsl_prepare_fieldmap means presubtracted
>phase data and the magnitude_image means the shorter TE magnitude data.
>Is it right?
>
>Then, how should I apply the epi_reg to multiple images?
>Because my data are motion-corrected fMRI data, I need to apply the same
>registration and de-distortion to multiple images.
>
>Thanks,
>Hiroki
>
>(2014/08/09 19:11), Mark Jenkinson wrote:
>> Hi,
>>
>> Use the epi_reg script (
>>http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FLIRT/UserGuide#epi_reg ) , as
>>this is what it is designed for.
>>
>> All the best,
>> Mark
>>
>>
>> On 8 Aug 2014, at 11:14, Hiroki Kurashige <[log in to unmask]> wrote:
>>
>>> Dear FSL experts,
>>>
>>> I would like to use bbr in flirt.
>>> So, I read the help of flirt and found the options related to bbr,
>>>-wmseg, -wmcoords and -wmnorms.
>>> However, I don't know that how I should set these options.
>>> Could you mind let me know the example of the setting of these options?
>>>
>>> I guess that -wmseg is the white matter nifti file separated from the
>>>others.
>>> But I don't know how I can make it using FSL tool.
>>>
>>> Thanks,
>>> Hiroki
>>
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