Publications of Marcus A. Brubaker

A BIB file with all of my publications is available here. You can also visit my Google Scholar page or see my CV for more information.

Book Chapters and Tutorials

• Video-based People Tracking. Marcus A. Brubaker, Leonid Sigal and David J. Fleet. In Handbook on Ambient Intelligence and Smart Environments. H. Nakashima, H. Aghajan, and J.C. Augusto (Eds). Springer Verlag, 2009. (pdf preprint)
• Physics-Based Human Motion Modelling for People Tracking. Marcus A. Brubaker, Leonid Sigal and David J. Fleet. Tutorial at IEEE ICCV 2009. (website, including slides, code and report)

Journal Articles

• Introduction and Initial Evaluation of a Novel Three-Dimensional Imaging and Analysis System for Firearm Forensics. Todd Weller, Marcus A. Brubaker, Pierre Duez and Ryan Lilien. Association of Firearm and Tool Mark Examiners (AFTE) Journal, (to appear, 2015).
• Stan: A Probabilistic Programming Language. Bob Carpenter, Andrew Gelman, Matt Hoffman, Daniel Lee, Ben Goodrich, Michael Betancourt, Marcus A. Brubaker, Jiqiang Guo, Peter Li, and Allen Riddell. Journal of Statistical Software, (to appear, 2015).
• Map-Based Probabilistic Visual Self-Localization. Marcus A. Brubaker, Andreas Geiger and Raquel Urtasun. IEEE Transactions on Pattern Analysis and Machine Intelligence, (2015). (pdf preprint)
• Alignment of cryo-EM movies of individual particles by optimization of image translations. John L. Rubinstein and Marcus A. Brubaker. Journal of Structural Biology, (2015). (arXiv) (article)
• Description and comparison of algorithms for correcting anisotropic magnification in cryo-EM images. Jianhua Zhao, Marcus A. Brubaker, Samir Benlekbir and John L. Rubinstein. Journal of Structural Biology, (2015). (arXiv) (article)
• Efficient Optimization for Sparse Gaussian Process Regression. Yanshuai Cao, Marcus A. Brubaker, David J. Fleet and Aaron Hertzmann. IEEE Transactions on Pattern Analysis and Machine Intelligence, (2015). (pdf preprint)
• TMaCS: A hybrid template matching and classification system for partially-automated particle selection. Jianhua Zhao, Marcus A. Brubaker and John L. Rubinstein. Journal of Structural Biology (2013). (article) (source)
• A Bayesian Method for 3-D Macromolecular Structure Inference using Class Average Images from Single Particle Electron Microscopy. Navdeep Jaitly, Marcus A. Brubaker, John L. Rubinstein, and Ryan H. Lilien. Bioinformatics (2010). (pdf preprint) (project website, including code)
  
• Physics-based Person Tracking Using the Anthropomorphic Walker. Marcus A. Brubaker, David J. Fleet and Aaron Hertzmann. International Journal of Computer Vision, Volume 87, Issue 1 (2010), pg 140. (pdf preprint) (code)

Conference Papers

• Building Proteins in a Day: Efficient 3D Molecular Reconstruction. Marcus A. Brubaker, Ali Punjani and David J. Fleet. In Proceedings of CVPR 2015. (pdf preprint) (extended abstract) (arXiv) (code)
• Bayesian Filtering with Online Gaussian Process Latent Variable Models. Yali Wang, Marcus A. Brubaker, Brahim Chaib-draa and Raquel Urtasun. In Proceedings of UAI 2014. (pdf preprint)
• Efficient Optimization for Sparse Gaussian Process Regression. Yanshuai Cao, Marcus A. Brubaker, Aaron Hertzmann, and David J. Fleet. In Proceedings of NIPS 2013. (pdf preprint) (project website, including code) (arXiv) (official proceedings)
• Lost! Leveraging the Crowd for Probabilistic Visual Self-Localization. Marcus A. Brubaker, Andreas Geiger and Raquel Urtasun. In Proceedings of IEEE CVPR 2013. Award Winner: Best Paper Runner-Up (pdf preprint) (supplemental pdf) (code) (poster pdf) (presentation video) (slides pdf) (video) (YouTube)
• A Family of MCMC Methods on Implicitly Defined Manifolds. Marcus A. Brubaker, Mathieu Salzmann and Raquel Urtasun.  In Proceedings of AISTATS 2012. (pdf preprint) (code and poster)
  
• Estimating Contact Dynamics. Marcus A. Brubaker, Leonid Sigal and David J. Fleet.  In Proceedings of IEEE ICCV 2009. (pdf preprint) (avi MoCap) (YouTube Mocap) (avi Tracking) (YouTube Tracking)
  
• The Kneed Walker for Human Pose Tracking. Marcus A. Brubaker and David J. Fleet.  In Proceedings of IEEE CVPR 2008. (pdf preprint) (avi) (YouTube)
  
• Physics-based Person Tracking Using Simplified Lower Body Dynamics. Marcus A. Brubaker, David J. Fleet and Aaron Hertzmann.  In Proceedings of IEEE CVPR 2007. (pdf preprint) (avi) (YouTube)

Contributions without Proceedings

• Microscopic Advances with Large-Scale Learning: Stochastic Optimization for Cryo-EM. Ali Punjani and Marcus A. Brubaker. Oral presentation at the NIPS Workshop: Machine Learning in Computational Biology. December 2014. (arXiv)
• Development of a 3D-Topography Imaging and Analysis System for Firearm Identification using GelSight and Feature Based Case Matching. Ryan H. Lilien, Marcus A. Brubaker, and Todd Weller. Oral presentation at The Association of Firearm and Tool Mark Examiners (AFTE) Annual Training Seminar (Albuquerque). June 2013.
  
• A Bayesian method for 3D reconstruction of macromolecular structure using class averages from single particle electron microscopy. Navdeep Jaitly, Marcus A. Brubaker, John Rubinstein and Ryan H. Lilien. Oral presentation at Neural Information Processing Systems Workshop: Machine Learning in Computational Biology. December 2009.
  
• Physics-Based Human Pose Tracking. Marcus A. Brubaker, David J. Fleet and Aaron Hertzmann.  Oral presentation at Neural Information Processing Systems Workshop: Evaluation of Articulated Human Motion and Pose Estimation. December 2006.

Theses and Unreviewed Contributions

• The Stan Math Library: Reverse-Mode Automatic Differentiation in C++. Bob Carpenter, Matthew D. Hoffman, Marcus A. Brubaker, Daniel Lee, Peter Li and Michael Betancourt. arXiv e-prints cs.MS/1509.07164. September 2015. (arXiv)
• Microscopic Advances with Large-Scale Learning: Stochastic Optimization for Cryo-EM. Ali Punjani and Marcus A. Brubaker. arXiv e-prints stat.ML/1501.04656. January 2015. (arXiv)
• Physical Models of Human Motion for Estimation and Scene Analysis. Marcus A. Brubaker. PhD Thesis. September 2011. (pdf preprint)
• Physics-Based Priors for Human Pose Tracking. Marcus A. Brubaker. MSc Thesis. September 2006. (pdf preprint) (videos)