[pymvpa] How to export neighborhood relationships of NiftiDataset?

[Yaroslav Halchenko]

axes and direction depend on how they are stored in your specific
Nifti -- and those could vary since we do not deduce physical
orientation of the volume anyhow from qform.

On Tue, 08 Nov 2011, 冯璐 wrote:

> I think that is what I need.
> So array([0, 0, 1]) is the coordinate in the voxel space. X from 0 to max: right->left; Y from 0 to max: posterior->anterior; Z from 0 to max: inferior->superior ??


> Best wishes!

>      Lu FENG
> fenglu at fingerpass.net.cn

> -----Original Message-----
> From: pkg-exppsy-pymvpa-bounces+fenglu=fingerpass.net.cn at lists.alioth.debian.org [mailto:pkg-exppsy-pymvpa-bounces+fenglu=fingerpass.net.cn at lists.alioth.debian.org] On Behalf Of Yaroslav Halchenko
> Sent: 2011年11月8日 13:35
> To: Development and support pf PyMVPA
> Subject: Re: [pymvpa] How to export neighborhood relationships of NiftiDataset?

> so we are talking about 0.4.x series of pymvpa (in 0.6 AKA mvpa2 voxel
> indices are explicitly stored in feature attributes of a dataset):  so I
> guess you are looking for:

> In [10]: from mvpa.tests.tests_warehouse import datasets
> In [11]: datasets['3dsmall'].mapper.getInId(0)
> Out[11]: array([0, 0, 1])

> ?

> On Tue, 08 Nov 2011, 冯璐 wrote:

> >    Dear experts,



> >             I  know that  using NiftiDataset.map2Nifti()  or other  functions
> >    like mapForward()  or mapReverse(),  we  can deal  with  either 2D  or  3D
> >    dataset freely. But I wonder how to export the neighborhood  relationships
> >    of the volume.  Briefly, I��d like  to have a  transformation matrix or  a
> >    list of  coordinations  for each  voxel.  I need  this  if I  go  on  with
> >    processing by other tools instead of PyMVPA.

> >             Thanks in advanceJ



> >    Best wishes!



> >         Lu FENG

> >    fenglu at fingerpass.net.cn



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