Hi Colin - re: the first question, check out dmri_trk2trk. Anastasia.
> Hello; > > first, regarding the information here: > > http://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferTrackVisTransforms > > This looks to me very much like snippets of code to help people write > their > own code to read and transform files, byte by byte, with the help of the > trackvis .trk header/file spec. > > That's great. Thanks. But has anyone written a script or some C or > something to actually do that. If not, and if I do that in the form > probably of C source, does anyone want the code? > > second: > > I'm using freeesurfer for ex-vivo macaque data. It's been a struggle but > I've got there. > > There is something I would like to do: as well as keeping what I have, I > would like to tilt the volume's nose up a few degrees (I'd probably use > the > afni "nudge" plugin for that, or something) and then apply the same > transform to my white and pial surfaces. > > The idea there being to use the surfaces as diagrams in the same cut plane > as diagrams in an atlas (the pandya white matter atlas, the paxinos > atlas), > mark areas and then transform those areas off else where (into diffusion > data as masks in fact). > > I hope that's clear. I just want to apply an arbitrary (actually, a rigid > body) linear transform to the surfaces and volumes so that when viewed > coronally in sequence in freeview they are in the same plane as diagrams > in > an atlas, and I can compare the two by eye. the pial and white surfaces > together look line like diagrams, and this is very helpful actually. > especially if they are in the same cut plane as the atlas diagrams. > > thanks, > > Colin > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
