[3dem] About dynamics

[Carlos Oscar Sorzano]

Dear Jay,


what we have observed is that image classification can be, especially 
for small particles, a very unstable process, no matter which program 
you use. You may even call the same program twice having remarkably 
different results. What we are promoting is the use of "consensus" 
classification: two particles go together in the same class if the two 
particles have been consistently put together in multiple runs of the 
same program, or even better, by different algorithms. We only believe 
those classification results that have been replicated independently.


In Scipion there are easy ways to compute these intersections of sets, 
but I am sure that this can also be performed in other programs.


Kind regards, Carlos Oscar


On 5/26/20 2:03 AM, Jay Rai wrote:
> Just to be add: Its work like a charm on big complexes like ribosome. 
> In other words- which software is best for the multibody refinement/ 
> protein dynamics?
> Thanking you in advance,
> jay
> ------------------------------------------------------------------------
> *From:* 3dem <3dem-bounces at ncmir.ucsd.edu> on behalf of Jay Rai 
> <jrai at fsu.edu>
> *Sent:* Monday, May 25, 2020 3:27 PM
> *To:* 3dem at ncmir.ucsd.edu <3dem at ncmir.ucsd.edu>
> *Subject:* [3dem] About dynamics
> Dear Cryo-EM folks,
> I am trying to solve the dynamics of  300 kD multi proteins complex. 
> Any idea which software is the most useful? Any tips and suggestions. 
> So, far I tried Relion and cryosprac. Both gave me different results.
> Thanks
> Jay
>
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