Re: help with TrakEM2 alignment

Posted by Saalfeld, Stephan on Apr 14, 2016; 7:55pm
URL: http://imagej.273.s1.nabble.com/help-with-TrakEM2-alignment-tp5016144p5016146.html

Yes.  Please try the deformable alignment tool (Shift + T).  You place
some landmarks (Shift click) and drag them around.  This, like the
affine alignment tool is limited to the current selection.  You can
draw masks into selected patches (select (arrow tool, choose patches or
Ctrl A), draw a region of interest (e.g. ImageJ freehand tool), fill
with black (F)), you can copy individual patches, and you can send them
to other layers (both somewhere in the right click menu).  Using some
appropriate combination of these operations will enable you to do what
you asked.

Best,
Stephan


On Thu, 2016-04-14 at 09:57 -0700, inesica wrote:

> Hello everybody!
> I had a question about manual realignment with TrakEM2. I can align
> in x-y
> and also rotate, however I was wondering if:
> -  i could choose different parts of the image and realign them
> differently
> (for ex. position one part more on the left, another part more on the
> right?)?
> - eliminate a part of the image and replace it with a part of the
> image
> above?
>
> Thank you very much in advance!
>
>
>
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