[MINC-users] animal

[Teodor Stanescu]

Hi,

I have 10 3T brain image datasets that I need to segment into several ROI's. I looked through the MINC-users archive and I found the following procedure (June 2004):

> The procedure is as followed:
>
> Step 1: mritotal $arg1'_mri.mnc' $arg1'_mri_stx_lin.xfm'
>
> Step 2: nu_correct $arg1'_mri.mnc' $arg1'_mri_nuc.mnc'
>
> Step 3: mritotal -nonlinear $arg1'_mri_nuc.mnc' -transformation
> $arg1'_mri_stx_lin.xfm' $arg1'_mri_stx_nonlin.xfm'
>
> Step 4a: mincresample -like
> /avgbrain/brain/images/icbm_template_1.00mm.mnc
> $arg1'_mri_nuc.mnc' -transformation $arg1'_mri_stx_lin.xfm'
> $arg1'_mri_stx_nuc.mnc'
>
> Step 4b: classify_clean $arg1'_mri_stx_nuc.mnc'
> $arg1'_mri_stx_classes.mnc'
>
> Step 5: stx_segment $arg1'_mri_stx_nonlin.xfm' $arg1'_mri_stx_lin.xfm'
> $arg1'_mri_stx_classes.mnc' $arg1'_mri_stx_labels.mnc'

Is this still the standard procedure?

Thank you.

Best,

Teodor Stanescu

PhD candidate,
Medical Physics
Cross Cancer Institute
11560 University Avenue
Edmonton, AB, T6G 1Z2
Phone: (780) 432-8622
Fax: (780) 432-8615


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