Re: [AMBER] Problem forming circular DNA

From: David A Case <>
Date: Mon, 28 Dec 2020 09:07:21 -0500

On Sun, Dec 27, 2020, Sebastian S wrote:
>I'm new to nab and have been trying to build a circular DNA molecule.
>To do this, I was following the nab tutorial, page 122

Wow: this is documentation from back in 2006....I'm guessing things have
changed some since then.

The current versions of the example programs are in
$AMBERHOME/AmberTools/examples/nab. Try this, in that directory:

./program_9 140 0

For me this creates a good-looking circle with 140 basepairs and a linking
number of 0. (No changes were made to wc_helix or other codes.)

...good luck....dac

.p.s: If you need more up-to-date written documentation, grab the
Amber16 manual from here:

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Received on Mon Dec 28 2020 - 06:30:03 PST
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