Dear Ben,
Changes last year or so hid away the smoothing and other options to the right-click menu of the 3d viewer.
So an approach that could work:
1. Show in 3d without much downsampling. Try what works best for your data.
2. Select the volume in 3d by clicking on it.
3. Right-click and choose the smoothing menu item, the one that ends up showing a slider to adjust the smoothing interactively.
Best,
Albert
> On Aug 19, 2014, at 12:34 PM, Ben Micklem <
[hidden email]> wrote:
>
> Dear List,
>
> I am having trouble finding any options for the rendering of volumes drawn
> as areas in TrakEM2 (from serial EM sections), other than the x,y
> downsampling ratio. Our output looks like a stack of cut-outs of the
> contours that have been drawn, each with a height of the section
> thickness. In the PLoS One article introducing TrakEM2,
>
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0038011> Fig 2 shows beautiful smooth rendering.
>
> Can anyone shed light on how to access the options for the marching cube
> algorithm?
>
> Best regards,
>
> Ben
>
> --
> Research Support Manager
> MRC Anatomical Neuropharmacology Unit,
> University of Oxford Department of Pharmacology,
> Mansfield Road, Oxford, OX1 3TH, United Kingdom.
> <
http://www.mrc.ox.ac.uk/>
>
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