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2008


Thumb xl jnm
A non-parametric Bayesian alternative to spike sorting

Wood, F., Black, M. J.

J. Neuroscience Methods, 173(1):1–12, August 2008 (article)

Abstract
The analysis of extra-cellular neural recordings typically begins with careful spike sorting and all analysis of the data then rests on the correctness of the resulting spike trains. In many situations this is unproblematic as experimental and spike sorting procedures often focus on well isolated units. There is evidence in the literature, however, that errors in spike sorting can occur even with carefully collected and selected data. Additionally, chronically implanted electrodes and arrays with fixed electrodes cannot be easily adjusted to provide well isolated units. In these situations, multiple units may be recorded and the assignment of waveforms to units may be ambiguous. At the same time, analysis of such data may be both scientifically important and clinically relevant. In this paper we address this issue using a novel probabilistic model that accounts for several important sources of uncertainty and error in spike sorting. In lieu of sorting neural data to produce a single best spike train, we estimate a probabilistic model of spike trains given the observed data. We show how such a distribution over spike sortings can support standard neuroscientific questions while providing a representation of uncertainty in the analysis. As a representative illustration of the approach, we analyzed primary motor cortical tuning with respect to hand movement in data recorded with a chronic multi-electrode array in non-human primates.We found that the probabilistic analysis generally agrees with human sorters but suggests the presence of tuned units not detected by humans.

pdf preprint pdf from publisher PubMed [BibTex]

2008

pdf preprint pdf from publisher PubMed [BibTex]


Thumb xl thumb screen shot 2012 10 06 at 12.23.39 pm
Dynamic time warping for binocular hand tracking and reconstruction

Romero, J., Kragic, D., Kyrki, V., Argyros, A.

In IEEE International Conference on Robotics and Automation,ICRA, pages: 2289 -2294, May 2008 (inproceedings)

Pdf [BibTex]

Pdf [BibTex]


Thumb xl pointclickimagesmall2
Neural control of computer cursor velocity by decoding motor cortical spiking activity in humans with tetraplegia

(J. Neural Engineering Highlights of 2008 Collection)

Kim, S., Simeral, J., Hochberg, L., Donoghue, J. P., Black, M. J.

J. Neural Engineering, 5, pages: 455–476, 2008 (article)

Abstract
Computer-mediated connections between human motor cortical neurons and assistive devices promise to improve or restore lost function in people with paralysis. Recently, a pilot clinical study of an intracortical neural interface system demonstrated that a tetraplegic human was able to obtain continuous two-dimensional control of a computer cursor using neural activity recorded from his motor cortex. This control, however, was not sufficiently accurate for reliable use in many common computer control tasks. Here, we studied several central design choices for such a system including the kinematic representation for cursor movement, the decoding method that translates neuronal ensemble spiking activity into a control signal and the cursor control task used during training for optimizing the parameters of the decoding method. In two tetraplegic participants, we found that controlling a cursor’s velocity resulted in more accurate closed-loop control than controlling its position directly and that cursor velocity control was achieved more rapidly than position control. Control quality was further improved over conventional linear filters by using a probabilistic method, the Kalman filter, to decode human motor cortical activity. Performance assessment based on standard metrics used for the evaluation of a wide range of pointing devices demonstrated significantly improved cursor control with velocity rather than position decoding.

pdf preprint pdf from publisher [BibTex]

pdf preprint pdf from publisher [BibTex]


Thumb xl woodtr
Incremental nonparametric Bayesian regression

Wood, F., Grollman, D. H., Heller, K. A., Jenkins, O. C., Black, M. J.

(CS-08-07), Brown University, Department of Computer Science, 2008 (techreport)

pdf [BibTex]

pdf [BibTex]


Thumb xl jmiv08brownian
Brownian Warps for Non-Rigid Registration

Mads Nielsen, Peter Johansen, Andrew Jackson, Benny Lautrup, Soren Hauberg

Journal of Mathematical Imaging and Vision, 31, pages: 221-231, Springer Netherlands, 2008 (article)

Publishers site PDF [BibTex]

Publishers site PDF [BibTex]


Thumb xl thumb screen shot 2012 10 06 at 12.28.24 pm
Simultaneous Visual Recognition of Manipulation Actions and Manipulated Objects

Kjellström, H., Romero, J., Martinez, D., Kragic, D.

In European Conference on Computer Vision, ECCV, pages: 336-349, 2008 (inproceedings)

Pdf [BibTex]

Pdf [BibTex]


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Tuning analysis of motor cortical neurons in a person with paralysis during performance of visually instructed cursor control tasks

Kim, S., Simeral, J. D., Hochberg, L. R., Truccolo, W., Donoghue, J., Friehs, G. M., Black, M. J.

2008 Abstract Viewer and Itinerary Planner, Society for Neuroscience, Washington, DC, 2008, Online (conference)

[BibTex]

[BibTex]


Thumb xl screen shot 2012 06 06 at 11.28.04 am
Infinite Kernel Learning

Gehler, P., Nowozin, S.

In Proceedings of NIPS 2008 Workshop on "Kernel Learning: Automatic Selection of Optimal Kernels", 2008 (inproceedings)

project page pdf [BibTex]

project page pdf [BibTex]


Thumb xl jmiv08theater
An Efficient Algorithm for Modelling Duration in Hidden Markov Models, with a Dramatic Application

Soren Hauberg, Jakob Sloth

Journal of Mathematical Imaging and Vision, 31, pages: 165-170, Springer Netherlands, 2008 (article)

Publishers site Paper site PDF [BibTex]

Publishers site Paper site PDF [BibTex]


Thumb xl thumb screen shot 2012 10 06 at 12.29.08 pm
Visual Recognition of Grasps for Human-to-Robot Mapping

Kjellström, H., Romero, J., Kragic, D.

In IEEE/RSJ International Conference on Intelligent Robots and Systems, IROS, pages: 3192-3199, 2008 (inproceedings)

Pdf [BibTex]

Pdf [BibTex]


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More than two years of intracortically-based cursor control via a neural interface system

Hochberg, L. R., Simeral, J. D., Kim, S., Stein, J., Friehs, G. M., Black, M. J., Donoghue, J. P.

2008 Abstract Viewer and Itinerary Planner, Society for Neuroscience, Washington, DC, 2008, Online (conference)

[BibTex]

[BibTex]


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Decoding of reach and grasp from MI population spiking activity using a low-dimensional model of hand and arm posture

Yadollahpour, P., Shakhnarovich, G., Vargas-Irwin, C., Donoghue, J. P., Black, M. J.

2008 Abstract Viewer and Itinerary Planner, Society for Neuroscience, Washington, DC, 2008, Online (conference)

[BibTex]

[BibTex]


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Neural activity in the motor cortex of humans with tetraplegia

Donoghue, J., Simeral, J., Black, M., Kim, S., Truccolo, W., Hochberg, L.

AREADNE Research in Encoding And Decoding of Neural Ensembles, June, Santorini, Greece, 2008 (conference)

[BibTex]

[BibTex]


Thumb xl trajectory nips
Nonrigid Structure from Motion in Trajectory Space

Akhter, I., Sheikh, Y., Khan, S., Kanade, T.

In Neural Information Processing Systems, 1(2):41-48, 2008 (inproceedings)

Abstract
Existing approaches to nonrigid structure from motion assume that the instantaneous 3D shape of a deforming object is a linear combination of basis shapes, which have to be estimated anew for each video sequence. In contrast, we propose that the evolving 3D structure be described by a linear combination of basis trajectories. The principal advantage of this approach is that we do not need to estimate any basis vectors during computation. We show that generic bases over trajectories, such as the Discrete Cosine Transform (DCT) basis, can be used to compactly describe most real motions. This results in a significant reduction in unknowns, and corresponding stability in estimation. We report empirical performance, quantitatively using motion capture data, and qualitatively on several video sequences exhibiting nonrigid motions including piece-wise rigid motion, partially nonrigid motion (such as a facial expression), and highly nonrigid motion (such as a person dancing).

pdf project page [BibTex]

pdf project page [BibTex]


Thumb xl sigalnips
Combined discriminative and generative articulated pose and non-rigid shape estimation

Sigal, L., Balan, A., Black, M. J.

In Advances in Neural Information Processing Systems 20, NIPS-2007, pages: 1337–1344, MIT Press, 2008 (inproceedings)

pdf [BibTex]

pdf [BibTex]


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Reconstructing reach and grasp actions using neural population activity from Primary Motor Cortex

Vargas-Irwin, C. E., Yadollahpour, P., Shakhnarovich, G., Black, M. J., Donoghue, J. P.

2008 Abstract Viewer and Itinerary Planner, Society for Neuroscience, Washington, DC, 2008, Online (conference)

[BibTex]

[BibTex]

2004


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Automatic spike sorting for neural decoding

Wood, F. D., Fellows, M., Donoghue, J. P., Black, M. J.

In Proc. IEEE Engineering in Medicine and Biology Society, pages: 4009-4012, September 2004 (inproceedings)

pdf [BibTex]

2004

pdf [BibTex]


Thumb xl wuembs2004
Closed-loop neural control of cursor motion using a Kalman filter

Wu, W., Shaikhouni, A., Donoghue, J. P., Black, M. J.

In Proc. IEEE Engineering in Medicine and Biology Society, pages: 4126-4129, September 2004 (inproceedings)

pdf [BibTex]

pdf [BibTex]


Thumb xl ivr04
The dense estimation of motion and appearance in layers

Yalcin, H., Black, M. J., Fablet, R.

In IEEE Workshop on Image and Video Registration, June 2004 (inproceedings)

pdf [BibTex]

pdf [BibTex]


Thumb xl sidworkshop04
3D human limb detection using space carving and multi-view eigen models

Bhatia, S., Sigal, L., Isard, M., Black, M. J.

In IEEE Workshop on Articulated and Nonrigid Motion, June 2004 (inproceedings)

pdf [BibTex]

pdf [BibTex]


Thumb xl woodtransbme04
On the variability of manual spike sorting

Wood, F., Black, M. J., Vargas-Irwin, C., Fellows, M., Donoghue, J. P.

IEEE Trans. Biomedical Engineering, 51(6):912-918, June 2004 (article)

pdf pdf from publisher [BibTex]

pdf pdf from publisher [BibTex]


Thumb xl cvpr2004sigal
Tracking loose-limbed people

Sigal, L., Bhatia, S., Roth, S., Black, M. J., Isard, M.

In IEEE Conf. on Computer Vision and Pattern Recognition, 1, pages: 421-428, June 2004 (inproceedings)

pdf [BibTex]

pdf [BibTex]


Thumb xl wutransbme04
Modeling and decoding motor cortical activity using a switching Kalman filter

Wu, W., Black, M. J., Mumford, D., Gao, Y., Bienenstock, E., Donoghue, J. P.

IEEE Trans. Biomedical Engineering, 51(6):933-942, June 2004 (article)

Abstract
We present a switching Kalman filter model for the real-time inference of hand kinematics from a population of motor cortical neurons. Firing rates are modeled as a Gaussian mixture where the mean of each Gaussian component is a linear function of hand kinematics. A “hidden state” models the probability of each mixture component and evolves over time in a Markov chain. The model generalizes previous encoding and decoding methods, addresses the non-Gaussian nature of firing rates, and can cope with crudely sorted neural data common in on-line prosthetic applications.

pdf pdf from publisher [BibTex]

pdf pdf from publisher [BibTex]


Thumb xl cvpr2004roth
Gibbs likelihoods for Bayesian tracking

Roth, S., Sigal, L., Black, M. J.

In IEEE Conf. on Computer Vision and Pattern Recognition, 1, pages: 886-893, June 2004 (inproceedings)

pdf [BibTex]

pdf [BibTex]


Thumb xl bildschirmfoto 2013 01 15 um 10.17.00
Development of neural motor prostheses for humans

Donoghue, J., Nurmikko, A., Friehs, G., Black, M.

In Advances in Clinical Neurophysiology, (Editors: Hallett, M. and Phillips, L.H. and Schomer, D.L. and Massey, J.M.), Supplements to Clinical Neurophysiology Vol. 57, 2004 (incollection)

pdf [BibTex]

pdf [BibTex]


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A direct brain-machine interface for 2D cursor control using a Kalman filter

Shaikhouni, A., Wu, W., Moris, D. S., Donoghue, J. P., Black, M. J.

Society for Neuroscience, 2004, Online (conference)

abstract [BibTex]

abstract [BibTex]

1993


Thumb xl bildschirmfoto 2013 01 14 um 11.48.36
Mixture models for optical flow computation

Jepson, A., Black, M.

In IEEE Conf. on Computer Vision and Pattern Recognition, CVPR-93, pages: 760-761, New York, NY, June 1993 (inproceedings)

pdf abstract tech report [BibTex]

1993

pdf abstract tech report [BibTex]


Thumb xl bildschirmfoto 2013 01 14 um 11.52.45
A framework for the robust estimation of optical flow

(Helmholtz Prize)

Black, M. J., Anandan, P.

In Fourth International Conf. on Computer Vision, ICCV-93, pages: 231-236, Berlin, Germany, May 1993 (inproceedings)

Abstract
Most approaches for estimating optical flow assume that, within a finite image region, only a single motion is present. This single motion assumption is violated in common situations involving transparency, depth discontinuities, independently moving objects, shadows, and specular reflections. To robustly estimate optical flow, the single motion assumption must be relaxed. This work describes a framework based on robust estimation that addresses violations of the brightness constancy and spatial smoothness assumptions caused by multiple motions. We show how the robust estimation framework can be applied to standard formulations of the optical flow problem thus reducing their sensitivity to violations of their underlying assumptions. The approach has been applied to three standard techniques for recovering optical flow: area-based regression, correlation, and regularization with motion discontinuities. This work focuses on the recovery of multiple parametric motion models within a region as well as the recovery of piecewise-smooth flow fields and provides examples with natural and synthetic image sequences.

pdf video abstract code [BibTex]

pdf video abstract code [BibTex]


Thumb xl bildschirmfoto 2013 01 15 um 11.07.28
Mixture models for optical flow computation

Jepson, A., Black, M.

In Partitioning Data Sets, DIMACS Workshop, pages: 271-286, (Editors: Ingemar Cox, Pierre Hansen, and Bela Julesz), AMS Pub, Providence, RI., April 1993 (incollection)

pdf [BibTex]

pdf [BibTex]


Thumb xl ijcai
Action, representation, and purpose: Re-evaluating the foundations of computational vision

Black, M. J., Aloimonos, Y., Brown, C. M., Horswill, I., Malik, J., G. Sandini, , Tarr, M. J.

In International Joint Conference on Artificial Intelligence, IJCAI-93, pages: 1661-1666, Chambery, France, 1993 (inproceedings)

pdf [BibTex]

pdf [BibTex]