Hi Greg,

It's ok to smooth using FS tools, as long as the different sizes of the faces of the ico7 are taken into account. This means that, after running "rpncalc", the "smoothdpx" command can be skipped, and the data can be converted to vertexwise and imported into qdec, which will then smooth it just once.

The reason for having a separate command for smoothing is just to be able to work with facewise data directly.

Hope this helps!

All the best!

Anderson

2012/12/6 Gregory Kirk gkirk@wisc.edu

Hi ,

I have winkler variety surface area data that is already smoothed and converted to vertex wise data on my average subject. Each subject has a file rh.ico7.fwhm10.mgh, lh... and Doug gave me a way with mri_concat to assemble the data into a single file so i can run command line mri_glmfit type analysis and that worked out fine.

I would like if i can to use qdec so our non command line unix oriented postdoc could easily run a lot of models of interest.

the LGI page says you can do

recon-all -s my_subject_id -qcache -measure pial_lgi

and then add a file .Qdecrc with MEASURE1 = pial_lgi

but recon-all -qcache will do smoothing and smoothing has already been done by his fancy specially designed method for the surface interpolated data and also my data is in .mgh format and not curv format like thickness or lgi.

is there a way i can cook this goose ?

thanks

greg _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

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