Hi FSL experts, I am doing tractography between two regions: A and B. When I use A as a seed and B as a target I get very different results compared to when I use B as a seed and A as a target. I thought tractography doesn't recognize de direction of the fibres so I was expecting to have similar results. Is it normal to get so different results? Does tractography recognizes then the directions of the fibres?
Also, I would like to double check that I am using the correct command:
probtrackx2 -x left_LGN -l --xfm=freesurfer2fa.mat --meshspace=freesurfer --seedref=freesurferdir/mri/nifti/brain --stop=freesurferdir/label/nifti/lh_V1 --opd -s $BEDPOST_DIR/merged -m $BEDPOST_DIR/nodif_brain_mask.nii.gz --dir=L_LGN_2_V1 --waypoints=freesurferdir/label/nifti/lh_V1 --targetmasks=freesurferdir/label/nifti/lh_V1 --os2t
Also, I am tracking through the mayer's loop, I am using the default parameters of probtrackx for -c, -s etc. But just wondering if the mayer's loop needs any different parameters since it's special in the way it is a very curved angle and also goes through grey matter.
Thanks!
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