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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