Hi,

I am astonished to hear that one can do sophisticates further calculations with Excel that is worth this effort. I think, R (http://cran.r-project.org/) brings all  statistical tools one can think of for free and runs also well with Linux. The same can be said about Python tools (http://nipy.sourceforge.net/, http://numpy.scipy.org/, http://www.scipy.org/). This makes scientific life more enjoyable.

Anyway, if you need a more convenient way to get the data in an Excel convenient format, you can maybe include this in a script subsequent to fslmeants. First you need to remove the first three lines containing the coordinates:

tail -n +3 voxeldata.txt > corr_voxelTS.txt

Afterwards you can convert this text file to the desired format. I am aware of two options to convert a text file to Excel format. Maybe one is working for you.
ssconvert is part of gnumeric (free Excel replacement): http://linuxcommand.org/man_pages/ssconvert1.html
perl tool: http://freecode.com/projects/writeexcel

Have fun,
wolf

On 07/28/2012 03:11 AM, zhang mingxia wrote:

Hi Wolf,

Thanks so much! That is what I wanted, except that the data in .txt files are not convenient to be input into excel in Windows system for further calculation :-).

Mingxia

On Fri, Jul 27, 2012 at 3:27 PM, wolf zinke <[log in to unmask]> wrote:

Hi,

I am not entirely sure what you mean by extracting the value of every voxel, but in principle it is the tool 'fslmeants' you are looking for:

fslmeants -i <yourdatafile> -o voxeldata.txt -m <somemask> --showall

This will output the data of each voxel columnwise as text file, with the first three rows referring to the voxels x-, y-, and z-coordinates.  So you might use it to extract voxel values for 3D volumes as well as for 4D volumes (please note the option '-c <x y z>' in case you only need the data from a single voxel).

I hope this helps,
wolf

On 07/27/2012 10:58 PM, zhang mingxia wrote:

Hello Everyone,

I want to extract the value of every voxel to do some analysis. Does anyone know the command to extract it? Thanks in advance.

Mingxia