[MINC-users] classify: bg and csf

[Alex Zijdenbos]

Hi Pedro,

Is it possible that your transform is mapping the tags into oblivion? The
standard set of tags are in ICBM stx space, and the argument to
-tag_transform should be an xfm that maps those standard tags to the
subject image. Just from the file name of the xfm you are using, I'd say
you may need to invert it first?

-- A

On Mon, Oct 10, 2016 at 9:06 AM, Pedro <ptcougopinto at gmail.com> wrote:

> Hi Alex
>
> $ classify_clean -tag_transform t1_2talnlin.xfm -mask mask.mnc
> -mask_source t1.mnc t1_class.mnc
>
> Shouldn’t classify_clean be using background tags from
> /opt/minc/share/classify/ntags_1000_bg.tag by default?
>
>
> > Em 7 de out de 2016, à(s) 22:27, Alex Zijdenbos <zijdenbos at gmail.com>
> escreveu:
> >
> > Hi Pedro,
> >
> > My guess would be that you are not providing classify with (a) sample(s)
> of 'bg'. Exactly how are you invoking it?
> >
> > -- A
> >
> >
> > Sent from mobile
> >
> >> On Oct 7, 2016, at 12:51, Pedro <ptcougopinto at gmail.com> wrote:
> >>
> >> Hi,
> >>
> >> I´m getting background and CSF to have the same label value with
> classify. Is it possible to avoid this? I tried using -mask -mask_source
> brain_mask.mnc, still with background labels as ‘1’.
> >>
> >> Thanks
> >> Pedro
> >> _______________________________________________
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