vbTPM

vbTPM is an analysis package aimed at analyzing time series from a single molecule technique called tethered particle motion, which are common for in vitro investigations of protein-nucleic acid interactions.

vbTPM uses a variational approach to hidden Markov models, and resembles recent methods for single molecule FRET (http://vbfret.sourcefore.net/) and single particle tracking (http://vbspt.sourceforge.net/) data.

2014-08-12: NAR manuscript in print! http://dx.doi.org/10.1093/nar/gku563

2014-06-11: manuscript accepted for publication in Nucleic Acids Research.
Preprint: http://arxiv.org/abs/1402.0894

If you use this code, please cite our work:

Stephanie Johnson, Jan-Willem van de Meent, Rob Phillips, Chris H. Wiggins, and Martin Lindén
Multiple LacI-mediated loops revealed by Bayesian statistics and tethered particle motion.
Nucleic Acids Research (2014), doi: 10.1093/nar/gku563