Exactly what I needed to know. Thanks very much!
Best,
Gül
*--*
*Gül H. Zerze*
Postdoctoral Research Associate
Chemical and Biological Engineering
Princeton University
http://pablonet.princeton.edu/
On Thu, Mar 26, 2020 at 8:11 AM David A Case <david.case.rutgers.edu> wrote:
> On Wed, Mar 25, 2020, Gül Zerze wrote:
> >
> >It looks like there are major changes in nab tools in this latest version
> >of AmberTools and I'm not able to find documentation on them.
>
> Please read section 38.1 of the Reference Manual for background here. We
> are indeed trying to move users away from dependence on NAB. Full
> documentation is the Amber 2018 refernce manual, available at
> ambermd.org/Manuals.php.
>
>
> >happy if you can guide me about how I can use nab tool of this new version
> >to create random sequences of RNA (without a pdb file).
>
> Are you looking to create "random" (single-stranded) structures? If so,
> na_link would never have been a good choice, but you might want to try
> RNAMake (https://simtk.org/frs/?group_id=1749).
>
> If you are interested in constructing helical models with varying
> sequence, see Section 38.4 of the Amber 2019 Reference Manual.
>
> ...regards...dac
>
>
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Received on Thu Mar 26 2020 - 11:00:02 PDT
