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they need to be in freesurfer's "conformed" space,exactly like your seed reference volume Saad On 23 Sep 2011, at 14:24, bnucon wrote: > Thanks! > However using the current version, which space should the targets volume masks in? > Since there is only one --xfm (freesurfer2fa.mat) already for the surface seed, I am really confused about the probelm. > > > 2011-09-23 > Xiangzhen > > 发件人： Saad Jbabdi > 发送时间： 2011-09-23 16:46:10 > 收件人： FSL > 抄送： > 主题： Re: [FSL] probtrackx from freesurfer cortical surfaces > Hi > In probtrackx's current (released) form, only the seed mask can be a surface/label, the targets should be volume masks. > In the next release, all masks in probtrackx can be either volumes, surfaces or combinations of these. > > Cheers, > Saad. > > > On 23 Sep 2011, at 03:01, bnucon wrote: > >> According the content in the webpage http://www.fmrib.ox.ac.uk/fsl/fdt/fdt_surface.html, we can run probtrackx from surface. >> Should the target masks are labels from freesurfer when using classification targets in probtrackx? Or just masks in volume? >> >> >> 2011-09-23 >> Xiangzhen > > -- > Saad Jbabdi > University of Oxford, FMRIB Centre > > JR Hospital, Headington, OX3 9DU, UK > (+44)1865-222466 (fax 717) > www.fmrib.ox.ac.uk/~saad > > > > > > > > > > > -- Saad Jbabdi University of Oxford, FMRIB Centre JR Hospital, Headington, OX3 9DU, UK (+44)1865-222466 (fax 717) www.fmrib.ox.ac.uk/~saad