Dear Freesurfer experts,

I just started using Freesurfer for performing MRI (T1)- group-based ROI analysis and managed to go through the first recon-all processing stream and making few manual edits. Then I followed first steps of the Qdec -procedure. However, there is a separate section on ROI-analysis as well. Are they complementary or not (which one to follow best)?

I tried both. However, at the Qdec section I got lost at creating the table: how to know volumes of pre-specified structures?

At the ROI-section I got lost at the point of adding labels to the average subject:

cd $freesurfer (directory)

mri_label2label \

  --srcsubject avgsubject \

  --srclabel avgsubject/label/lh.BA45.label \

  --trgsubject A06_T1 \

  --trglabel A06_T1/label/lh.BA45.label \

  --hemi lh \

--regmethod surface

(followed the example)

I got the error of:

subject_dir …/freesurfer

Freesurfer_home …/freesurfer

Loading source lab: ‘no such file or directory’...etc. … ERROR reading lh.BA45.label.

What am I doing wrong?

Thank you very much for your response in advance.

Kind regards, Caroline