Re: [scipion-users] Simmetry definition

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

Dear Dmitry,

it is true that in Scipion there is no true helical plugin. In Xmipp we 
have done some explorations (look for "Helical" with CTRL-F and Helical 
parameters should appear). That is a protocol to find and apply the 
helical parameters to a c1 volume. The exploration we did was 
alternating c1 one iteration of reconstructions with Xmipp highres, and 
a search/symmetrization. According to our single user of this protocol 
:-), the symmetrization of Xmipp was better than anything else he could 
compare. We did not pursue too much this line, so that we don't know if 
the overall result is better than other more specific packages (probably 
not, for instance we do not keep track of pieces coming from the same 
helix, which would reduce the uncertainty about alignment), and 
certainly it is inconvenient because of the need to alternate protocols. 
We found it very useful in order to escape from incorrect structures in 
which other packages were getting trapped.

Kind regards, Carlos Oscar

On 21/1/2020 18:20, Dmitry Semchonok wrote:
> Dear colleagues,
>
> Does any one work with the helices using SCIPION?
> If yes then is there a walkthrough/manual?
> As far as I remember the helix structure analysis currently is not implemented into the workflow.
>
> How to define the symmetry of the helix/particle? is there any tool for that?
>
>
> Thank you
>
> Sincerely,
> Dmitry
>
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