@article {Paninski2010,
	title = {A new look at state-space models for neural data.},
	journal = {Journal of computational neuroscience},
	volume = {29},
	number = {1-2},
	year = {2010},
	pages = {107{\textendash}26},
	abstract = {<p>State space methods have proven indispensable in neural data analysis. However, common methods for performing inference in state-space models with non-Gaussian observations rely on certain approximations which are not always accurate. Here we review direct optimization methods that avoid these approximations, but that nonetheless retain the computational efficiency of the approximate methods. We discuss a variety of examples, applying these direct optimization techniques to problems in spike train smoothing, stimulus decoding, parameter estimation, and inference of synaptic properties. Along the way, we point out connections to some related standard statistical methods, including spline smoothing and isotonic regression. Finally, we note that the computational methods reviewed here do not in fact depend on the state-space setting at all; instead, the key property we are exploiting involves the bandedness of certain matrices. We close by discussing some applications of this more general point of view, including Markov chain Monte Carlo methods for neural decoding and efficient estimation of spatially-varying firing rates.</p>},
	keywords = {1 introduction, Action Potentials, Action Potentials: physiology, Animals, Computer Simulation, for inference in state-space, forward-backward methods, hidden markov model, models, neural coding, Neurological, Neurons, Neurons: physiology, Retinal Ganglion Cells, Retinal Ganglion Cells: physiology, state-space models, Statistical, Synapses, Synapses: physiology, tridiagonal matrix},
	issn = {1573-6873},
	doi = {10.1007/s10827-009-0179-x},
	url = {http://www.ncbi.nlm.nih.gov/pubmed/19649698},
	author = {Paninski, Liam and Ahmadian, Yashar and Gil, Daniel and Shinsuke, Ferreira and Rahnama, Kamiar and Michael, Rad and Vogelstein, Joshua T and Wu, Wei and Ferreira, Daniel Gil and Koyama, Shinsuke and {Rahnama Rad}, Kamiar and Vidne, Michael}
}
