The M0 image goes in on the calibration tab of the GUI.
Michael
On 10 May 2013, at 10:30, Andreas Bartsch <[log in to unmask]> wrote:
> Hi Michael,
>
> where does the M0 calibration image enter into the Asl_gui?
> Thanks + cheers,
> Andreas
>
> Am 10.05.13 10:54 schrieb "Michael Chappell" unter
> <[log in to unmask]>:
>
>> If you are trying to quantify resting perfusion from pASL data then the
>> easiest thing to do is use oxford_asl (or the new user interface Asl_gui)
>> - I would recommend that you make sure you are using FSL 5.0.3 for this,
>> since it handles single TI data better.
>>
>> In essence what you need to do if you want absolute perfusion are three
>> steps (all carried out by the GUI now):
>> 1. Tag-control subtraction (asl_file).
>> 2. Kinetic model inversion (oxford_asl does this)
>> 3. Calibration (estimation of M0a) (oxford_asl or asl_calib)
>> If you can live with relative perfusion then the first step might be all
>> you want to start with. I think that correction for partial volume
>> effects is a good idea, but this is not widely used as of yet in the
>> community so it can currently be harder to interpret the results since
>> there is less literature to refer to.
>> Motion correction is generally a good idea and mcflirt can be used as a
>> first step. Motion correction can be problematic with ASL data though.
>>
>> Michael
>>
>> On 9 May 2013, at 14:00, Dídac Vidal <[log in to unmask]> wrote:
>>
>>> Hi everybody!.
>>>
>>> I am trying to preprocess fMRI perfusion data with BASIL toolset
>>> scripts for first time in a pASL with single TI data and I am getting a
>>> little confused.
>>>
>>> I think I would use
>>> a) asl_reg for registration,
>>> b) asl_file in order to get a CBF quantification,
>>> and then I woul use c) asl_calib in order to get an absolute
>>> quantification of CBF.
>>>
>>> My questions are:
>>> 1) is that correct?
>>> 2) I am missing something?
>>> Is PVE recommended /necessary?
>>> I guess some motion correction should be carried out before asl_file?
>>> Probably mcflirt should work fine.
>>>
>>> Thanks in advance
>>>
>
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