Re: [PyMOL] Super, algorithm

Hi Spencer -

If you need a superposition algorithm with a published reference, try CEAlign<." rel="nofollow">http://www.pymolwiki.org/index.php/Cealign>.  Some references are listed on the page for the former CEAlign Plugin<" rel="nofollow">http://www.pymolwiki.org/index.php/Cealign_plugin#References>  from before it was incorporated into PyMOL (in version 1.3).

Just be careful to note that the order of the first two arguments (target, mobile) is switched compared to the `super` and `align` commands (mobile, target).

Cheers,
Jared

--
Jared Sampson
Xiangpeng Kong Lab
NYU Langone Medical Center
http://kong.med.nyu.edu/






On Nov 26, 2014, at 7:13 AM, Spencer Bliven <sb...@uc...<mailto:sb...@uc...>> wrote:

I would also be interested if there is any documentation about the super algorithm and the differences to align.

-Spencer

On Fri, Nov 14, 2014 at 10:25 PM, Osvaldo Martin <alo...@gm...<mailto:alo...@gm...>> wrote:
Hi,

Exactly which algorithm is behind the super command? How the outliers pairs are defined?  The is some scientific paper related to super or it is really an experimental idea?

Thanks.

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