When doing a FC analysis, there is no need to run mkcontrast. selxavg3-sess figures out that you are doing a FC analysis and creates the appropriate contrast. The name of the contrast automatically created will be the name of the FC passed to fcseed-config, eg, if you used

-fcname L_Posteriorcingulate.dat

then, the contrast would be called L_Posteriorcingulate, which can then be passed to other commands (eg, isxconcat-sess)

doug


On 8/27/14 5:12 PM, Robby De Pauw wrote:
Dear FreeSurfer community,

I was wondering what my contrast-matrix should look like when doing a first-level analyses since there is no task involved. I tried looking at the -help flag, but I can’t see any options for setting a matrix without entering the numb of conditions.

This was the command I tried to use:

mkcontrast-sess -rmprestim -analysis restingstate.sm05.lh -contrast restingstate.lh

I’m sure I’m missing something here, but I can’t figure out what to do.

Thanks for the already given support!!

Best regards,

Robby

Robby De Pauw, dra.
Ghent University
Department of Physiotherapy and Rehabilitation Sciences
3B3
De Pintelaan 185
B-9000 Ghent








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