Hi Saad, thank you for this addition - the --otargetpaths option sounds
very useful. Unfortunately, when I add this to my current command line
(below), I get an immediate error that this option doesn't exist. Can you
suggest a fix?
Thank you,
Jeff
probtrackx2 --seed=${seed} -l --loopcheck --onewaycondition -c 0.2 -S 2000
--steplength=0.5 -P 5000 --fibthresh=0.01 --distthresh=0.0 --sampvox=0.0
--forcedir --opd --samples=merged --mask=nodif_brain_mask
--dir=${DTI_directory}.bedpostX/${twoROImask}
--targetmasks=${twoROImask}/targets.txt --os2t --otargetpaths
--out=${subject_type}_${identifier}_ptracx_${twoROImask}_stream.nii.gz
> Hi
>
> Does the number of classification targets influence the output of
> probtrackx? I expect it's not the case but would like to make sure.
>
> No.
>
> Also is there a way of visualising the streamlines between the seed and
> each target?
>
> Yes you can use the (hidden) option: --otargetpaths
> (however, it means you need to rerun probtrackx2…)
>
>
> Cheers
> Saad
>
>
>
>
> Thanks!
>
> --
> William I. A. Haynes
>
> 'Behaviour, Emotion and Basal Ganglia'
> CRICM - UPMC, Inserm U S 975, CNRS UMR 7225
> Bâtiment de l'ICM
> GHU Pitié-Salpêtrière
> 47/83 Bld de l'Hôpital
> 75651 Paris cedex 13
> Tel: + (33) 1 57 27 41 36<tel:%2B%20%2833%29%201%2057%2027%2041%2036>
>
> --
> Saad Jbabdi
> University of Oxford, FMRIB Centre
>
> JR Hospital, Headington, OX3 9DU, UK
> (+44)1865-222466 (fax 717)
> www.ndcn.ox.ac.uk/team/researchers/saad-jbabdi<http://www.ndcn.ox.ac.uk/team/researchers/saad-jbabdi>
>
>
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