Hi Paul,
thank you for answer.
I am sending bias image and yes, there is an artefact.
What exactly do you mean by "mask the region"? Do you think manually segment
bias image?
Thanks
Mark
paul mccarthy <[log in to unmask]> wrote on Thu, 5 Sep 2019 09:42:58
+0100:
> Hi Mark,
>
> What does the estimated bias field look like in that location? I'm guessing
> that it contains an artifact induced by the presence of the
> lesion.
>
> You could try manually adjusting the field map (e.g. smooth with fslmaths,
> or mask the region and use lesion_filling), and then manually correcting
> your structural image.
>
> Paul
>
> On Thu, 5 Sep 2019 at 08:03, Marek Dostál <[log in to unmask]>
> wrote:
>
> > Dear FLS users,
> >
> > when I compare restore image after bias field correction (in attached file
> > left image) with original FLAIR image (right image), there is area in the
> > middle of lesion with extremely low intensity, which is some error.
> > Do you know how can I fix this error? This causes a problem with lesion
> > segmentation.
> >
> > Thank you
> >
> > Mark
> >
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