4096-2048-0 corresponds to Pi-0-(-Pi)
Mag images are need to make a volume mask.
pk
----- Original Message -----
From: "Daniel Schwartz" <[log in to unmask]>
To: <[log in to unmask]>
Sent: Wednesday, December 19, 2007 11:50 AM
Subject: Re: [FSL] Using Siemens Trio field maps in FUGUE
> Getting the Siemens 3T Trio to save the magnitude images is a checkbox
> in the protocol... just flip through the tabs until you see a "save
> magnitude images" box. It will give you two volumes of magnitude images,
> one for each TE, although I'm not exactly sure that fugue needs these
> mag images at all. At least, that's what it does on our Trio. Does
> anybody have any good ideas about what the UNITS are on these phase
> field maps (3T Trio)?
>
> -Daniel
>
> Daniel Schwartz, CIC
> Functional Brain Imaging Lab
> Oregon Health & Sciences University
> 3181 SW Sam Jackson Pk. Rd.
> Portland, OR 97239
> (503) 494-6494
>>>> [log in to unmask] 12/19/07 9:39 AM >>>
> Which field map protocol is it? We have been having some difficulty
> getting
> the phase and magnitude saved with the standard sequence.
>
> Thanks,
>
> Matt.
>
> -----Original Message-----
> From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On
> Behalf
> Of Kent Conover
> Sent: Wednesday, December 19, 2007 12:34 PM
> To: [log in to unmask]
> Subject: [FSL] Using Siemens Trio field maps in FUGUE
>
> Hi,
>
> I am writing to request help with using Siemens Trio field map in FUGUE.
> There is a Siemens filed mapping protocol that provides two image files.
> The
> first looks like a field map image, while the second looks like a
> magnitude
> image. However, when I submit these files to FUGUE via the MELODIC gui
> the
> results are strange, (It appears as if the brain is on fire!).
>
> I am encouraged by a report that something very similar has been done
> (see:
> http://users.fmrib.ox.ac.uk/~kylep/kyles_papers/abstracts/ismrm_def_abstract
> _submitted.pdf).
>
> I would be grateful for any insights!
>
> -Kent Conover
>
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