Publications
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Particle-based Variational Inference with Generalized Wasserstein Gradient Flow
Ziheng Cheng*, Shiyue Zhang*, Longlin Yu, Cheng Zhang
In Proceedings of the 37th Neural Information Processing Systems (NeurIPS 2023)
[code] -
Hierarchical Semi-Implicit Variational Inference with Application to Diffusion Model Acceleration
Longlin Yu*, Tianyu Xie*, Yu Zhu*, Tong Yang, Xiangyu Zhang, Cheng Zhang
In Proceedings of the 37th Neural Information Processing Systems (NeurIPS 2023)
[code] -
ARTree: A Deep Autoregressive Model for Phylogenetic Inference
Tianyu Xie, Cheng Zhang
In Proceedings of the 37th Neural Information Processing Systems (NeurIPS 2023, spotlight presentation)
[code] -
A Topology-marginal Composite Likelihood via a Generalized Phylogenetic Pruning Algorithm
Seong-Hwan Jun, Hassan Nasif, Chris Jennings-Shaffer, David H Rich, Anna Kooperberg, Mathieu Fourment, Cheng Zhang, Marc A. Suchard, Frederick A. Matsen IV
Algorithms for Molecular Biology, 18(10), 2023 -
A Data-driven and Model-based Accelerated Hamiltonian Monte Carlo Method for Bayesian Elliptic Inverse Problems
Sijing Li, Cheng Zhang, Zhiwen Zhang, Hongkai Zhao
Statistics and Computing, 33(90), 2023
[code] -
Learnable Topological Features for Phylogenetic Inference via Graph Neural Networks
Cheng Zhang
In Proceedings of the 11th International Conference on Learning Representations (ICLR 2023)
[code] -
Semi-Implicit Variational Inference via Score Matching
Longlin Yu, Cheng Zhang
In Proceedings of the 11th International Conference on Learning Representations (ICLR 2023, spotlight presentation)
[code] -
Non-bifurcating Phylogenetic Tree Inference via The Adaptive LASSO
Cheng Zhang*, Vu Dinh*, Frederick A. Matsen IV
Journal of the American Statistical Association, 116(534), 2021, pp. 858-873 -
Improved Variational Bayesian Phylogenetic Inference with Normalizing Flows
Cheng Zhang
In Proceedings of the 34th Neural Information Processing Systems (NeurIPS 2020, oral presentation)
[code] [poster] -
Variational Bayesian Phylogenetic Inference
Cheng Zhang, Frederick A. Matsen IV.
In Proceedings of the 7th International Conference on Learning Representations (ICLR 2019)
[poster] -
Generalizing Tree Probability Estimation via Bayesian Networks
Cheng Zhang, Frederick A. Matsen IV
In Proceedings of the 32th Neural Information Processing Systems (NeurIPS 2018, spotlight presentation)
[code] [poster] -
Variational Hamiltonian Monte Carlo via Score Matching
Cheng Zhang, Babak Shahbaba, Hongkai Zhao
Bayesian Analysis 13(2), 2018, pp. 486-506 -
Hamiltonian Monte Carlo Acceleration Using Surrogate Functions with Random Bases
Cheng Zhang, Babak Shahbaba, Hongkai Zhao
Statistics and Computing, 27(6), 2017, pp. 1473-1490
[code] -
Precomputing Strategy for Hamiltonian Monte Carlo Methods Based on Regularity in Parameter Space
Cheng Zhang, Babak Shahbaba, Hongkai Zhao
Computational Statistics, 32(1), 2017, pp. 253-279 -
Probabilistic Path Hamiltonian Monte Carlo
Vu Dinh*, Arman Bilge*, Cheng Zhang*, Frederick A. Matsen IV
In Proceedings of the 34th International Conference on Machine Learning (ICML 2017)
[code] [poster]