Hi Forrest, I don't think I ever tried to analyze the T1s from the other sites (in fact, I did not even know that the other sites collected T1s). The T1s from MGH went through FS without a problem.

doug

On 11/03/2012 02:36 PM, Forrest Sheng Bao wrote:

Hi,

Has anyone (un)successfully extracted surfaces from FBIRN traveling subjects?

I just tried on the first 5 subjects of FBIRN traveling subjects Phase I. To every subject, the surfaces extracted from data sampled at Iowa (scans 1 and 2), Duke (scans 1 and 2) and UCI (scan 1) do not look well. Some of the hemispheres have parts of the other halves attached to it. Talairach transform also failed on these scans (I got the surface via -notal-check option). I tried using --mritotal for Talairach, but still no good. I did on both v5.0 and v5.1.

However, on Standford2, UMN1 &2 and UNM1&2, the surfaces look very good.

So I am wondering whether anyone out there has similar experience to mine, and whether they finally solved the problem. I am more interested in why Talairach failed on some scans and any solution other than manual alignment.

Cheers, Forrest

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