Aug 13, 2010
1 MB
Windows
Source code
Zipped version for Windows
Aug 13, 2010
1 MB
Any
Source code
Tarred version for mac osx and unix
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NAST (Nucleic Acid Simulation Toolkit) is a knowledge-based coarse-grained tool for modeling RNA structures. It uses user-provided information about primary sequence, secondary structure, and tertiary contacts (optional) of an RNA to produce a diverse set of 3D structures that satisfy these constraints.
PLEASE NOTE that this package includes an older version of C2A (for adding full atomic detail to coarse grain structure). We highly recommend you download and use the newest version of C2A from its own project page:
http:simtk.org/home/c2a
Downloads instructions and details
Downloads instructions and details
NAST
NOTE: Before installing, be sure that Python is installed on your system.
**** See Downloads Instructions and Details for more information ****
nast-1.0
Aug 11, 2010
New NAST, now with GPU enhances MD and "Random Unfold" algorithm for generating random unfolded starting strutures.
Documentation Links
Aug 13, 2010
Installation guide for NAST and C2A
Aug 13, 2010
NAST and C2A tutorial version 4
PLEASE CITE THESE PAPERS
Jonikas MA, Radmer RJ, Laederach A, Das R, Pearlman S, Herschlag D, Altman RB. Coarse-grained modeling of large RNA molecules with knowledge-based potentialsand structural filters.RNA. 2009 Feb;15(2):189-99.PMID: 19144906 (2009) View
Previous Releases
NasT 0.5
May 12, 2009
Download Links
Windows -- Must have Python 2.6
Jun 10, 2009
541 KB
Windows
Application/binary
Windows binary installer (32 bit). Includes NAST/C2A. Vista is NOT SUPPORTED.
Jun 10, 2009
1 MB
Any
Other
Example simulation scripts
Intel Mac Leopard OS X 10.5--Must have Python 2.5
Jun 10, 2009
1 MB
Mac OS X
Application/binary
Intel, 32 bit Mac Leopard OS X binary install script. Includes NAST/C2A and example scripts.
Nov 03, 2009
1 MB
Mac OS X
Application/binary
Library for Mac OSX snow leopard. Rename to libOpennMM_static.a (remove the "for snow leopard" part)and place in nast-0.5/lib/osx/ directory
Source files -- Python 2.5 or 2.6
Jun 10, 2009
1 MB
Any
Source code
Source code (32 bit Linux or Intel Mac) -- NO GPU Libraries needed. Includes NAST/C2A and example scripts.
Nov 03, 2009
1 MB
Linux
Application/binary
library for 64bit unix. Replace file with same name in /lib/linux/
Jun 10, 2009
2 MB
Any
Source code
Source code (32 bit Linux or Intel Mac) -- NEED GPU & CUDA. Includes NAST/C2A and example scripts.
Documentation Links
Mar 16, 2010
Installation Instructions
Mar 12, 2010
Tutorial exercises explaining how to use NAST and C2A with the provided example files
RNA workshops using NAST
Mar 12, 2010
Future home for Slides, videos, and handouts for the March 2010 3D RNA modeling and simulation workshop.
Jul 10, 2009
Slides, videos, and handouts from the June 2009 3D RNA Modeling workshop, including NAST/C2A, RNABuilder, Zephyr