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This download contains the C2A package, which must be decompressed, and installed in order to use C2A. Supported platforms: Unix Mac OS X (must have gcc installed, you need to download and install Xcode, which is free) We do not currently support Windows. This C2A package will take you as far as adding full atomic detail to a coarse-grain template, but you will still need to minimize the full atomic structure using a physics-based MD engine. The easiest way to do this is to install the Zephyr program from simtk. Zephyr is a free, user-friendly, graphical user interface to GROMACS. The harder way is to use GROMACS directly, which we describe in a guide you can find on this downloads page and under the Documents section, in the Supporting material folder. Please note that you need fftw installed in order to use GROMACS. If your platform supports yum, that is the easiest way to install fftw.
Downloads instructions and details
C2A-1.0
C2A (coarse to atomic) software package to add full atomic detail to coarse-grain structures
C2A-1.0
Aug 13, 2010

New release allows use of coarse-grained templates of any schema based on RNA base atoms.  

Download Links

Aug 13, 2010
13 MB
Windows
Source code
Zipped version for Windows

Aug 13, 2010
13 MB
Any
Source code
Tarred version for mac osx and unix

Documentation Links

Aug 13, 2010
Installation guide for NAST and C2A

PLEASE CITE THESE PAPERS

Knowledge-based instantiation of full atomic detail into coarse-grain RNA 3D structural models. Jonikas MA, Radmer RJ, Altman RB. Bioinformatics. 2009 (2009)

Previous Releases


C2A-0.1

Aug 05, 2009

Includes an example for parsing .bpseq format files to generate -FD.txt fragments definition file fore use with C2A.  

Download Links

Sep 28, 2009
73 MB
Linux
Source code

Documentation Links

Aug 07, 2009
Tips and tricks for minimizing with GROMACS

Aug 06, 2009
NAST/C2A tutorial. This document contains detailed informtion on running C2A.


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