Software

This section is still under construction. Command-line executables suitable for distribution are being developed. Current target platforms are: linux-gnu, andLinux, and Darwin. They will be released to the public once time can be found to finish a draft for user documentation. However, if a user-hostile version will work for you, please send requests to hawyang-at-berkeley.edu.

1. Photon-by-photon maximum-Information analysis of single-molecule FRET trajectories.
   Available in Linux command line environment [code to be released soon].

   Please cite the following reference,
   L.P. Watkins and H. Yang, Biophys. J. 2004, 86, 4015-4029.

2. Photon-by-photon detection of single-molecule emission intensity change points. (Corrigenda for implementation, last update 2008.09.07)
   Available in Linux command line environment with the GNU Scientific Library. Current distribution version = 1.1 (build 20080530)
   
   Linux-i386 command line binary:
   [changepoint-linux.exe]
   
   Windows-MinGW command line binary (note that the GSL library has to be installed and the system search path properly modified):
   [changepoint-MinGW.exe]
   
   Windows-coLinux command line binary:
   andLinux Beta 1 [changepoint-andLinux.exe]
   
   Mac OS X command line binary:
   Darwin 9.2 Intel [changepoint-darwin.exe]
   

   Please cite the following reference,
   L.P. Watkins and H. Yang, J. Phys. Chem. B 2005, 109, 617-628.

3. Detection of changes in Brownian diffusion dynamics.
   Available in Linux command line environment [code to be released soon].

   Please cite the following reference,
   D. Montiel, H. Cang, and H. Yang, J. Phys. Chem. B 2006, 110, 19763-19770.

Part of the software development is based upon work supported by the National Science Foundation under Grant No. CHE-0349284 as well as by the U.S. Department of Energy under contract No. DE-AC03-76SF00098.