Dear Paul,

Once more question. I am looking at my thresh_zstat1.nii.gz image and I do not know which thresholds (min-max) I should use. If I open it without doing any other thing set min is set to 0 and the max is set to 8.0672.....Normally critical Z value is 2.3 but I do not know if I have to change something in order to present it as a result with the ramp gif

I would be more than grateful if you could kindly help me with this.

Kind regards,

Rosalia

2016-11-21 16:24 GMT+01:00 Rosalia Dacosta Aguayo <[log in to unmask]>:

Hi Paul,

Thank you a lot :)

Rosalia

2016-11-21 15:00 GMT+01:00 paul mccarthy <[log in to unmask]>:

Hi Rosalia,

Don't use the rendered_thresh files - these files are a hybrid of the background image, and the zstat image, solely for use with the Render1 colour map.

Try using the thresh_zstat images instead. These have already been thresholded for statistical significance, so you do not need to do any masking/thresholding.

Cheers,

Paul

On 20 November 2016 at 20:54, Rosalia Dacosta Aguayo <[log in to unmask]> wrote:

Dear FSL experts,

I have my rendered_thresh_Zstat1.nii.gz

I would like to see the activactions overlapped with MNI template (2mm).

I have used flirt and as -interp nearestneighbor, the problem I am getting as that I can overlap perfectly both images: rendered_thresh_Zstat1.nii.gz over MNI152_T1_brain_2mm....BUT I CAN NOT COLOR THE FOUND ACTIVATIONS and I am really worried with this....I have done a mask and binarize according to the significant results...but maybe instead of using 0.95 as a threshold I should use 2.3 as a critical threshold taking into account I am coping with Z images....is this the probem?

Any suggestion would be more than appreciate...I have never done an analysis with fMRI activation.

Yours sincerely,

Rosalia