Refine SVReg using command line

Forums Forums Surface and Volume Registration (SVReg) Refine SVReg using command line

This topic contains 2 replies, has 2 voices, and was last updated by  roeysc 3 months ago.

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  • #1209

    roeysc
    Participant

    Dear all,
    We would like to run the SVReg pipeline on multiple subjects using the command line (on an Ubuntu 16.4 system).
    We thought the best practice would be using the cortical_extraction.sh script. However, we’re not sure how to apply the “Refine sulcal curves” option which is available in the GUI.

    Could you please tell us which of the following commands you suggest we use, and at what stage:
    1) refine_sulcal_hemi.sh
    2) refine_ROIs2.sh
    3) svreg_refinements.sh

    Or perhaps there is some flag we missed?

    Many thanks!
    Best,
    Shai and Roey

  • #1210

    Anand Joshi
    Moderator

    Hi Shai,
    You could simply use
    cortical_extraction.sh
    and svreg.sh to do the processing. svreg.sh includes the refinement steps.

  • #1211

    roeysc
    Participant

    Thank you Anand! We will try your suggestion.

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