Re: [PyMOL] Can I easily specify an alignment to use in the sequence display?

[Tony L. <ton...@gm...>]

Hi Thomas,

In my use-case, I'd like to distribute .pml scripts to my PyMOL-using
users, which display the alignment correctly out-of-the-box, without the
users having to install anything. AFAIU, it doesn't sound as though I'd be
able to do that with this solution.

Please may I add 1 vote for supporting this feature out-of-the-box. :)

Anyway, thanks very much for your help - much appreciated.

Kind regards,

Tony


On 17 January 2018 at 10:04, Thomas Holder <tho...@sc...>
wrote:

> Hi Tony,
>
> It's possible, but not out of the box. I wrote a script for this some time
> ago which uses biopython and emboss. If you're using Linux or MacOS,
> everything is prepackaged for you in Anaconda Cloud. For installation
> instructions and examples, see:
> https://pymolwiki.org/index.php/Load_aln
>
> Cheers,
>   Thomas
>
> > On Jan 11, 2018, at 11:40 AM, Tony Lewis <ton...@gm...> wrote:
> >
> > Dear PyMOL people,
> >
> > Please can anyone tell me whether there's an easy way to use an
> alignment of the residues in the displayed structures (say, from a FASTA
> file) to align the residues shown in the sequence display?
> >
> > I would find this a very powerful feature.
> >
> > Many thanks for any help.
> >
> > Tony Lewis
>
> --
> Thomas Holder
> PyMOL Principal Developer
> Schrödinger, Inc.
>
>