I think so
----- Original Message -----
From: "Agnieszka Burzynska" <[log in to unmask]>
To: <[log in to unmask]>
Sent: Tuesday, March 18, 2008 10:49 AM
Subject: Re: [FSL] White matter hyperintensity and FLAIR processing
> Thanks, I will try that!
> Will the WMH borders be still easy to define after resampling the FLAIR to
> 1x1x1mm (is this what you mean by re-slicing?)?
> Best,
> Aga
>
>
> On 18.03.2008 16:45 Uhr, "Peter Kochunov" <[log in to unmask]> wrote:
>
>> I think you should have little troubles registering two datasets. One
>> step
>> you can do to insure stability is reslicing the FLAIR data into 1x1x1
>> resolution before regestering it to T1w. Also you might want to play with
>> the cost function in flirt. The normalized correlation don't seem to work
>> as
>> well as say mutual info.
>> pk
>> ----- Original Message -----
>> From: "Agnieszka Burzynska" <[log in to unmask]>
>> To: <[log in to unmask]>
>> Sent: Tuesday, March 18, 2008 10:39 AM
>> Subject: Re: [FSL] White matter hyperintensity and FLAIR processing
>>
>>
>>> Dear Peter,
>>> Thank you a lot for your email.
>>> I can do without the automation (will do manual identification of
>>> affected
>>> tissue), but I would like to have my FLAIR images in the MNI space. Do
>>> you
>>> know if anyone does such registration with 5mm slice thickness? I know
>>> you
>>> had 1mm isovoxel in your recent study and others with my parameters just
>>> do
>>> manual tracing on FLAIR image + multiply by slice gap to get the WMH
>>> volume.
>>>
>>> Do you know if I will get this registration well in FLIRT and my MPRAGE
>>> or
>>> shall I use a 1x1x1 T1-WI of these subjects (I may get them, but
>>> acquired
>>> in
>>> different MRI session- or will it cause even more problems with my FLAIR
>>> quality?). I am not too familiar with FLIRT yet.
>>>
>>> Thanks a lot,
>>> Aga
>>>
>>>
>>> On 18.03.2008 14:33 Uhr, "Peter Kochunov" <[log in to unmask]> wrote:
>>>
>>>> Aga,
>>>>
>>>> Unfortunatly, I don't think automated processing will be possible with
>>>> this
>>>> dataset. The only workable approach to do automated HWM lesion
>>>> segmentation
>>>> is by the use of T2-maps produced by the multi-echo sequences.
>>>> pk
>>>> ----- Original Message -----
>>>> From: "Agnieszka Burzynska" <[log in to unmask]>
>>>> To: <[log in to unmask]>
>>>> Sent: Tuesday, March 18, 2008 7:09 AM
>>>> Subject: [FSL] White matter hyperintensity and FLAIR processing
>>>>
>>>>
>>>>> Dear all,
>>>>> I am searching for the most straightforward way to estimate the WMH
>>>>> load
>>>>> in
>>>>> my subjects.
>>>>> 1) Was there any follow-up on the message from 2002? (see below)
>>>>> 2) My FLAIR images have resolution 1.3x0.9x5mm and my MPRAGE 2x2x1mm.
>>>>> Does
>>>>> it mean I will have hard time in registering them to MNI?
>>>>>
>>>>> Thank you!
>>>>>
>>>>> Aga
>>>>>
>>>>>
>>>>> On Mon, 22 Jul 2002, Wei Wen wrote:
>>>>>
>>>>>> Dear Steve,
>>>>>>
>>>>>> It may be possible to extract (segment) white matter hyperintensity
>>>>>> (FLAIR
>>>>>> sequence) using a combination of bet, fast etc. as discussed at FSL
>>>>>> course
>>>>>> in Melbourne. Could I send you a couple of such images and see if you
>>>>>> could
>>>>>> tweak the programs (or come up with some suggestions) for this
>>>>>> purpose?
>>>>>>
>>>>>> Many thanks,
>>>>>>
>>>>>> Wei Wen
>>>>>> NPI, Prince of Wales Hospital/UNSW
>>>>>> Australia
>>>>>>
>>>>>>
>>>>>
>>>
>
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