Hi Saad,

 

Thank you very much for your suggestions. They have proven to be very helpful.

 

How would I produce the values for the 1st, 2nd, and 3rd volume of the vector? 

 

Thanks,

Catherine

On Fri, Apr 5, 2013 at 4:11 PM, Saad Jbabdi <[log in to unmask]> wrote:

Hi

You can resample vector data using "vecreg", provided that you have a transformation that you got with either FLIRT or FNIRT. Vecreg allows you to apply this transformation to vector data (e.g. the dyads). 

If you want to average vector data across subjects (after registration), then you can use this tool:  www.fmrib.ox.ac.uk/~saad/average_vectors

If you want to extract the x y z components (not sure why you would want to do that), then you can use "fslroi".

Cheers

Saad

On 5 Apr 2013, at 15:49, Nucleos P wrote:

Hello Saad -

Okay - That's understandable about tbss.  I really just need a way to
register the images to the MNI152 template space.

Is there a way register the subjects' dyads1* images to MNI152 space
and then create x, y, z, vector component maps (e.g. Just x vector
map, just y vector map, and just z vector map)?

Thank you very much!
-Catherine

On 4/5/13, Saad Jbabdi <[log in to unmask]> wrote:

I don't think you can use the dyads in a tbss-style analysis. It makes more

sense for scalar data.

Saad

On 5 Apr 2013, at 14:00, Nucleos P wrote:

Hi Saad,

It is actually the map the dyads1* images not the FA map. FSL tbss just

uses the same naming convention (~FA) for all inputs.

Thanks,

Catherine

On Fri, Apr 5, 2013 at 5:10 AM, Saad Jbabdi <[log in to unmask]> wrote:

Hi - sorry I don't understand what you're saying.  FA is a scalar map, so

there is no x,y,z component to it.

Saad

On 5 Apr 2013, at 00:03, Nucleos P wrote:

Hi Saad,

I have used the fslroi tool to extract voxel masks with specific x,y,x

coordinates.

To exclude the x and y vector maps to get the z vector map what

parameters would I choose?

fslroi <input> <output> <xmin> <xsize> <ymin> <ysize> <zmin> <zsize>

My input would be the all_FA.nii

...any suggestions?

Thank you,

Catherine

On Thu, Apr 4, 2013 at 4:12 AM, Saad Jbabdi <[log in to unmask]> wrote:

Hi - you can use fslroi for this.

Saad

On 3 Apr 2013, at 22:58, Nucleos P wrote:

Hello experts -

Would you happen to know any programs or scripts that could help create

individual x, y, z vector maps from a primary eigenvector map?

Currently, I use FSL and get both dyads1* output from the bedpostx and

V1 output from dtifit.

I would like to find a way to extract the 3 vector components from the

maps.

Thanks in advance for your time and help,

Catherine

--

Saad Jbabdi

University of Oxford, FMRIB Centre

JR Hospital, Headington, OX3 9DU, UK

(+44)1865-222466  (fax 717)

www.ndcn.ox.ac.uk/team/researchers/saad-jbabdi

--

Saad Jbabdi

University of Oxford, FMRIB Centre

JR Hospital, Headington, OX3 9DU, UK

(+44)1865-222466  (fax 717)

www.ndcn.ox.ac.uk/team/researchers/saad-jbabdi

--

Saad Jbabdi

University of Oxford, FMRIB Centre

JR Hospital, Headington, OX3 9DU, UK

(+44)1865-222466  (fax 717)

www.ndcn.ox.ac.uk/team/researchers/saad-jbabdi

--

Saad Jbabdi

University of Oxford, FMRIB Centre

JR Hospital, Headington, OX3 9DU, UK

(+44)1865-222466  (fax 717)

www.ndcn.ox.ac.uk/team/researchers/saad-jbabdi