vbfret is software for identifying states in and inferring idealized trajectories from smFRET time series as described in "Learning Rates and States from Biophysical Time Series: A Bayesian Approach to Model Selection and Single-Molecule FRET Data" . vbfret is implemented in MATLAB and is available for download .
this software is free for scientific use. please contact us if you plan to use this software for commercial purposes. do not further distribute without prior permission of the authors. if used in your scientific work, please cite as (bibtex):
Learning Rates and States from Biophysical Time Series: A Bayesian Approach to Model Selection and Single-Molecule FRET Data, Jonathan E. Bronson, Jingyi Fei, Jake M. Hofman, Ruben L. Gonzalez Jr., Chris H. Wiggins. Biophysical Journal, 97(12):3196-205 (2009).
please do forward links to related publications so we can learn about your research.
this work was funded by the national institutes of health under grants #PN2EY016586-04 and 1RO1GM084288-01, the burroughs wellcome fund under grant CABS 1004856 and the national science foundation under grant MCB 0644262.
parts of vbFRET were built on or borrow directly from the codes of others, including those of Matt Beal; Chris Bishop and Ian Nabney; and Emtiyaz Khan and Kevin Murphy. Please do see the acknowledgments.txt document in the download package for the appropriate citations and license information.
screenshot of vbfret (click to enlarge):