Re: [scipion-users] using xmipp3 - reconstruct significant for d type of symmetry

[Carlos O. S. <co...@cn...>]

Dear Dmitry,


On 11/02/16 13:33, Dmitry Semchonok wrote:
> Dear colleagues,
>
>
> Question is about *xmipp3 - reconstruct significant*
>
>
> I have a test sample - worm Hb with *d6* type of *symmetry*.
>
> So in order to use *xmipp3 - reconstruct significant* protocol I have 
> to set the symmetry value for *c1*.
This protocol accepts symmetry as one of its parameters. You may want to 
use it.
>
> Can I symmetrize the outcome volume after with xmipp3-preprocess 
> volume script?
You can also do c1 and then symmetrize, although the result will not be 
the same. When you give d6 to reconstruct significant you are narrowing 
the search space, so there are more chances of finding the global (or at 
least rather good) minimum. If you use c1 in significant (when the 
volume is really d6), you may fall in a suboptimal value, that after 
symmetrization it is still suboptimal.
> Whether this approach is not biased?
See the discussion above.
> Or for d6 type of symmetry it is initially better to run scripts like 
> ransac ?
>
Ransac can also exploit the symmetry, as significant.

Kind regards, Carlos Oscar
>
> Thank you.
>
> Sincerely,
> Dmitry
>
>
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Carlos Oscar Sánchez Sorzano                  e-mail:   co...@cn...
Biocomputing unit                             http://biocomp.cnb.csic.es
National Center of Biotechnology (CSIC)
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