The dti data I have is 3-way interleaved and is there is a utility to
convert such data into the format required by fdt ?
Any help would be greatly appreciated.
From
Anusha
> At the top of the window on either side of the scrollbars for brightness
> control (furthest to the right on the top row of controls) there are two
> entry boxes. These dictate the min and max in the display range. set these
> to 0 and 1.
>
> You can also make binary masks in fslview using
> file -> create mask
>
> and then use the pen/eraser at the far right in the bottom row of
> controls.
>
> Tim
>
>
>
>
> -------------------------------------------------------------------------------
> Tim Behrens
> Centre for Functional MRI of the Brain
> The John Radcliffe Hospital
> Headley Way Oxford OX3 9DU
> Oxford University
> Work 01865 222782
> Mobile 07980 884537
> -------------------------------------------------------------------------------
>
> On Sun, 21 Nov 2004, Anusha Sritharan wrote:
>
>> Hi Tim,
>>
>> Thanks for your reply. But where in fslview I need to change the display
>> range to 0 to 1?
>>
>> Also is there is a utility within fsl (or outside) to create a binary
>> mask
>> for ROI ? I need to do this to run the prob-tractography with seed maks
>> and other options.
>>
>> TIA
>>
>> From
>> Anusha
>>
>>
>>
>> > Hi -
>> >
>> > The problem is in fslview. When you load in the DTI image, the display
>> > range will be around -1 to 1. You need to change this to be 0 to 1.
>> Then
>> > the colours should look sharp.
>> >
>> > This problem is fixed for the next release.
>> >
>> > Thanks
>> >
>> > T
>> >
>> > -------------------------------------------------------------------------------
>> > Tim Behrens
>> > Centre for Functional MRI of the Brain
>> > The John Radcliffe Hospital
>> > Headley Way Oxford OX3 9DU
>> > Oxford University
>> > Work 01865 222782
>> > Mobile 07980 884537
>> > -------------------------------------------------------------------------------
>> >
>> > On Fri, 19 Nov 2004, Anusha Sritharan wrote:
>> >
>> >> I am very new to fsl. At the moment I am learning to use the fdt tool
>> >> box
>> >> to analyse some dti data. As a first step I have created the
>> normalised
>> >> bvecs
>> >>
>> >> 0.00 -0.66159 0.35592 .........
>> >> 0.00 0.46084 0.76144 .........
>> >> 0.00 -0.5915 -0.54178 ..........
>> >>
>> >> and the corresponding bvals
>> >>
>> >> bvals 0 1200 1200 .............
>> >>
>> >> I have more than one b0 for which bvecs and bvals have appropriate
>> >> values.
>> >> when I run dtifit and view V1/V2 images using fslview, the RGB mode
>> does
>> >> not work very well. I expect to get sharp colours such as R, G and B,
>> >> instead I get very soft light shades.
>> >>
>> >> I did check the archives and did find a email with the same problem.
>> But
>> >> I
>> >> have the normalised vectors and donot know where I am going wrong.
>> Can
>> >> anybody help
>> >>
>> >> TIA
>> >>
>> >> From
>> >> Anusha
>> >>
>> >
>>
>
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