Archival

Feynman-Kac Correctors in Diffusion: Annealing, Guidance, and Product of Experts
Marta Skreta*, Tara Akhound-Sadegh*, Viktor Ohanesian*, Roberto Bondesan, Alán Aspuru-Guzik, Arnaud Doucet, Rob Brekelmans, Alex Tong*, Kirill Neklyudov*
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Scalable Equilibrium Sampling with Sequential Boltzmann Generators
Charlie B. Tan*, Avishek Joey Bose*, Chen Lin, Leon Klein, Michael M. Bronstein, Alex Tong
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Defining and Benchmarking Open Problems in Single-Cell Analysis
With the growing number of single-cell analysis tools, benchmarks are increasingly important to guide analysis and method development. …
Malte Luecken*, Scott Gigante*, Daniel Burkhardt*, Robrecht Cannoodt, Daniel Strobl, Nikolay Markov, Luke Zappia, Giovanni Palla, Wesley Lewis, Daniel Dimitrov, Michael Vinyard, Daniel Magruder, Alma Andersson, Emma Dann, Qian Qin, Dominik Otto, Michal Klein, Olga Botvinnik, Louise Deconinck, Kai Waldrant, Bastian Rieck, Constantin Ahlmann-Eltze, Eduardo Da Veiga Beltrame, Andrew Benz, Carmen Bravo González-Blas, Ann Chen, Benjamin DeMeo, Can Ergen, Swann Floc'hlay, Adam Gayoso, Stephanie Hicks, Yuge Ji, Vitalii Kleshchevnikov, Gioele La Manno, Maximilian Lombardo, Romain Lopez, Dario Righelli, Hirak Sarkar, Valentine Svensson, Alex Tong, Galen Xing, Chenling Xu, Jonathan Bloom, Angela Pisco, Julio Saez-Rodriguez, Drausin Wulsin, Luca Pinello, Yvan Saeys, Fabian Theis, Smita Krishnaswamy
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Steering Masked Discrete Diffusion Models via Discrete Denoising Posterior Prediction
Jarrid Rector-Brooks, Mohsin Hasan, Zhangzhi Peng, Zachary Quinn, Chenghao Liu, Sarthak Mittal, Nouha Dziri, Michael Bronstein, Yoshua Bengio, Pranam Chatterjee, Alex Tong*, Avishek Joey Bose*
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Generating Multi-Modal and Multi-Attribute Single-Cell Counts with CFGen
Alessandro Palma, Till Richter, Hanyi Zhang, Manuel Lubetzki, Alex Tong, Andrea Dittadi, Fabian Theis
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Meta Flow Matching: Integrating Vector Fields on the Wasserstein Manifold
Lazar Atanackovic*, Xi Zhang*, Brandon Amos, Mathieu Blanchette, Leo J. Lee, Yoshua Bengio, Alex Tong, Kirill Neklyudov
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The Superposition of Diffusion Models Using the Itô Density Estimator
Marta Skreta, Lazar Atanackovic, Avishek Joey Bose, Alex Tong, Kirill Neklyudov
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Trajectory Flow Matching with Applications to Clinical Time Series Modeling
Xi Zhang*, Yuan Pu*, Yuki Kawamura, Andrew Loza, Yoshua Bengio, Dennis L. Shung*, Alex Tong*
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Sequence-Augmented SE(3)-Flow Matching For Conditional Protein Backbone Generation
Proteins are essential for almost all biological processes and derive their diverse functions from complex 3D structures, which are in …
Guillaume Huguet*, James Vuckovic*, Kilian Fatras, Eric Thibodeau-Laufer, Pablo Lemos, Riashat Islam, Cheng-Hao Liu, Jarrid Rector-Brooks, Tara Akhound-Sadegh, Michael Bronstein, Alex Tong*, Avishek Joey Bose*
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Metric Flow Matching for Smooth Interpolations on the Data Manifold
Matching objectives underpin the success of modern generative models and rely on constructing conditional paths that transform a source …
Kacper Kapusniak, Peter Potaptchik, Teodora Reu, Leo Zhang, Alex Tong, Michael Bronstein, Avishek Joey Bose, Francesco Di Giovanni
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