Dear Anderson,

Thank you very much for your suggestion. PALM is great!!. Kindly I have the following question:

If I want to correlate (pearson) to columns of continuous variables included in the file "file.csv" I used the following command line : palm -i file.csv -pearson -demean Then I got the following error message

Running PALM using MATLAB with the following options:

-i filecsv

-demean

-pearson demean

Error using palm_takeargs (line 961)

Unknown option: "demean"

Error in palm_backend (line 31)

[opts,plm] = palm_takeargs(varargin{:});

Error in palm (line 80)

palm_backend(varargin{:});

What is / are the reasons for this message

Thank you

Antoine

On Mon, Mar 2, 2015 at 2:58 AM, Anderson M. Winkler <[log in to unmask]> wrote:

Hi Antoine,

You can use fslmeants as indicated. It will produce one value per subject per mask, which can be analysed using other software (e.g. SPSS) or, if you want, use permutation methods as available in PALM (available here), as that will allow correction for multiple testing just like randomise, but for non-imaging data as this.

All the best,

Anderson

On 28 February 2015 at 15:50, Antoine Nasimian <[log in to unmask]> wrote:
Dear FSL experts.
I did TBSS analysis (just I ran the 4 scripts, without Randomise) to generate all_FA_skeletonized.
I am interested in calculating the mean FA in the cortico spinal tract.

- Is is correct technically if I create a 4D mask for the corticospinal tract(from all_FA_skeletonized depending on JUH atlas) then I include this mask in the following command line:

fslmeants -i all_FA_skeletonized -m my 4D mask

- Can I include the output of the previous command line (FA values) in a Bayesian analysis or I correct it for multiple comparisons using FDR or Bonferroni methods?

Thanks,
Antoine

Please ignore typos. Sent from my phone