Thanks.
It works as I wished.
from surfer import io as sIo a = sIo.read_annot('label/lh.aparc.annot') b = sIo.read_geometry('surf/lh.pial')
And now I can have each vertex labeled --------------------------------------------------------------------- Pedro Paulo de Magalhães Oliveira Junior Netfilter & SpeedComm Telecom -- www.netfilter.com.br -- For mobile: http://itunes.apple.com/br/artist/netfilter/id365306441
2011/10/9 Michael Waskom mwaskom@stanford.edu
If you know Python, you can likely do this pretty easily with tools from the PySurfer package: http://pysurfer.github.com/
(Check out surfer.io.read_annotation).
If you're just using the io routines, you won't need the somewhat heavy Mayavi visualization dependencies. You should be able to read in and manipulate surfaces/annotations just with numpy.
Best, Michael
2011/10/8 Bruce Fischl fischl@nmr.mgh.harvard.edu
it wouldn't be that hard to put something together if you want to avoid matlab. Spec out what you need and send me a sample, maybe on Bert
Bruce
On Sat, 8 Oct 2011, Pedro Paulo de Magalhães Oliveira Junior wrote:
Thanks.
I suppose I can't do this without matlab. Right?
-- iOS 5.0
Em 08/10/2011, às 19:29, Bruce Fischl fischl@nmr.mgh.harvard.edu escreveu:
there is a write_annotation.m file you can use
On Sat, 8 Oct 2011, Anderson Winkler wrote:
ops, it seems the comments inside the dpxwrite.m no longer reflect what
it does. You probably don't need this, but anyway, the version attached is more up-to-date. Anderson On 08/10/11 17:28, Anderson Winkler wrote: Hi Pedro,
There is probably a way to do that using FS tools from the commandline, but the attached script should do the same. The result is a "data-per-vertex" file, which is the same as the .asc files from mris_convert. There is no geometry input, hence the vertex coordinates are all set to (0,0,0).
Hope it helps! All the best, Anderson On 08/10/11 17:17, Pedro Paulo de Magalh�es Oliveira Juniorwrote: I need to create a file where I have the parcellation value (structure name) per vertex. I've tried�mris_convert --annot /Applications/freesurfer/** subjects/bert/label/lh.aparc.**annot /Applications/freesurfer/**subjects/bert/surf/lh.pial parc.asc But I get the error:�ERROR: unknown file annot file type specified for output: saida.asc Has someone done this before? Thanks
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