I'm running the following command. In the interest of reducing the analysis time and the size of fdt_matrix2 size, I would like to restrict the analysis to half the brain. Do you think it's better to run whole brain probtrackx and then restrict target2 to a half brain "node_brain_mask" or to restrict the probtrackx itself to half the brain and keep target2 as the nodif_brain_mask?
Here's my probtrackx command for reference:
/usr/local/fsl/bin/probtrackx2 -x seed_mask.nii.gz -l --omatrix2 --target2=/home/nodif_brain_mask.nii.gz --avoid=/home/exclusion_mask.nii.gz -c 0.2 -S 2000 --steplength=0.5 -P 5000 --fibthresh=0.01 --distthresh=2.0 --sampvox=0.0 --forcedir --opd -s /home/Diffusion.bedpostX/merged -m /home/Diffusion.bedpostX/nodif_brain_mask --dir=/home/output --targetmasks=/home/targetmasks.txt --os2t
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