[Insight-users] simple/synthetic 3D images in Nifti format?

[Elena Ranguelova]

Hello,

Thanks!

Since I'm not so familiar with simpleITK, but am used to Matlab, I found
another quick way to generate such data:
http://tomography.o-x-t.com/2008/04/13/3d-shepp-logan-phantom/ (here one
can also download generated data in .dat Matlab file)
http://www.mathworks.com/matlabcentral/fileexchange/9416
https://sites.google.com/site/kittipat/mvpa-for-brain-fmri/convert_matlab_nifti(for
.dat -> Nifti)

Regards,
Elena

On 14 February 2013 18:15, Bradley Lowekamp <blowekamp at mail.nih.gov> wrote:

> Hello,
>
> You can use SimpleITK's python binding fairly easy to generate synthetic
> image, and just save them as nifti format. Here is an example of rendering
> the Marshner Lobb function:
>
> def marschner_lobb(size=40,alpha=0.25, f_M=6.0):
>     img = sitk.PhysicalPointSource( sitk.sitkVectorFloat32, [size]*3,
> [-1]*3, [2.0/size]*3)
>     imgx = sitk.VectorIndexSelectionCast(img,0)
>     imgy = sitk.VectorIndexSelectionCast(img,1)
>     imgz = sitk.VectorIndexSelectionCast(img,2)
>     del img
>     r = sitk.Sqrt(imgx**2+imgy**2)
>     del imgx, imgy
>     pr = sitk.Cos((2.0*math.pi*f_M)*sitk.Cos((math.pi/2.0)*r))
>     return
> (1.0-sitk.Sin((math.pi/2.0)*imgz)+alpha*(1.0+pr))/(2.0*(1.0+alpha))
>
>
> Then just use sitk.WriteImage to save it.
>
> There are also some "ImageSource" filters to generate functions like the
> Gabor, Gaussian, Checkerboard.
>
> Additional information on getting started with SimpleITK can be found here:
> http://www.itk.org/Wiki/SimpleITK/GettingStarted
>
> Brad
>
> On Feb 14, 2013, at 12:06 PM, Elena Ranguelova <elboyran at gmail.com> wrote:
>
> > Dear all,
> >
> > Does anyone know where I can find and download for free some very
> simple,(best would be synthetic) 3D volumetric images in Nifti format?
> > For example- volume containing not the whole brain image, but a cropped
> around one structure? Or simple synthetic 3D sphere or cylinder?
> >
> > Regards,
> > Elena
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