NeurIPS 2026 Papers

Conference on Neural Information Processing Systems

Decision breakdown

6,437papers

Counted from the official paper list; may differ slightly from the number the conference announced.

  • Oral
    991.5%
  • Spotlight
    2403.7%
  • Poster
    6,09894.7%

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WaveSem: Frequency-Adaptive Tokenization for Disentangling Semantics and Noise in Genomics

Shou Z Chen, Bing He, Zhenchao Tang, Jun Zhu, Minghao Yang, Tianxu Lv, Yu Wang, Jiayang Wu, Fang Wang, Yu Zhao, Chenchen Qin, Jianhua Yao

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High-throughput scientific sensing, exemplified by genomics, faces a critical representation bottleneck: discrete biological events are often obscured by continuous, high-entropy stochastic noise. Standard neural codecs fail to distinguish deterministic semantics from stochastic sensor noise, inefficiently allocating their information budget to high-entropy fluctuations rather than to low-entropy structural motifs. We introduce \textsc{WaveSem}, a frequency-adaptive framework that imposes a physically motivated inductive bias on discrete representation learning. Through integrated wavelet decomposition, \textsc{WaveSem} explicitly disentangles each signal into a structured semantic core and a residual texture component. We validate this approach on large-scale nanopore sequencing data, a domain characterized by extreme sequence lengths and low signal-to-noise ratios (SNRs). \textsc{WaveSem} achieves a $14\times$ storage reduction while maintaining competitive downstream basecalling accuracy. Moreover, linear probing of the frozen encoder reaches $\mathrm{AUROC}=0.928$ for 5mC methylation detection, demonstrating that the learned tokens preserve semantic information beyond nucleotide identity. These results establish disentangled vector-quantized representations as a scalable foundation for efficient genomic analysis and long-term archival.

Poster
Total Variation Distance Estimation in Autoregressive Models

Eric Price, Kevin Tian, Zhiyang Xun, Yusong Zhu

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Modern LLM deployments use a number of implementation choices and inference optimizations (e.g., batching, custom kernels, quantization) on top of fixed weights, so two engines serving "the same model" can produce meaningfully different distributions. We study the problem of estimating the total variation (TV) distance between two length-$n$ autoregressive distributions to additive error $\varepsilon$, under three access models: 1. Under *sample* access, we use $\widetilde{O}(\frac{n^2K}{\varepsilon^2})$ queries, where $K$ is the maximum support of the next-token distribution. 2. Under *logit* access, we use $O(\frac{n}{\varepsilon^2})$ queries, and this is tight. 3. Under *noisy logit* access, we can smoothly interpolate between the above two: if probability values are given to $\sigma$ relative error, we use $\widetilde{O}(\frac{n + n^2\sigma^2}{\varepsilon^2})$ queries. We complement our theoretical results with an empirical evaluation of our algorithms, for example measuring the distance between \texttt{sglang} and \texttt{vllm} on standard settings. Our experiments highlight the robustness and practicality of estimating the total variation distance, compared to existing alternatives such as KL divergence.

Poster
Selectivity Makes State-Space Models Universal Sequence Approximators

Yoshihiro Maruyama

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Selective state-space models such as Mamba replace fixed linear state transitions by input-dependent transitions, yielding recurrent sequence models that retain linear-time inference while adapting their memory dynamics to the current token. We show that even a simple form of this selective memory update has universal approximation power. Specifically, for every compact input domain, finite horizon, and continuous causal sequence-to-sequence map, a clocked diagonal selective state-space scan with strictly contractive gates and a linear-in-state readout uniformly approximates the target map. The proof is constructive: input-dependent diagonal propagation generates tensor-product partition features over prefixes, and the linear-in-state readout combines these features with sampled target values. Thus the high-order interactions required for universality are produced inside the selective scan itself, rather than by attention, nonlinear hidden-state dynamics, or a universal multilayer perceptron applied after a sequence encoder. These results identify selectivity as a mathematically sufficient mechanism for expressive linear-time state-space sequence modeling. Selectivity lets the model decide, token by token, which parts of the past should be preserved, faded, or combined with the present. The universal approximation theorem shows that this adaptive use of memory is sufficient to reproduce any well-behaved causal sequence rule over a fixed horizon.

Spotlight
Reinforced Fast Weights via Next-Sequence Prediction

Hee Seung Hwang, Xindi Wu, Sanghyuk Chun, Zhiwei Deng, Olga Russakovsky

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Fast weight architectures offer a promising alternative to standard transformers for long-context modeling by replacing the KV-cache with a recurrently updated fixed-size memory. Despite this architectural shift, they are typically trained with the same next-token prediction (NTP) objective as standard transformers. This creates a mismatch: fast weight models rely on an evolving memory state to support future predictions, while NTP provides only token-level supervision for the immediate next token. We address this mismatch with next-sequence prediction (NSP), a sequence-level extension of NTP that trains models to produce coherent multi-token continuations from their recurrent memory state. To optimize this sequence-level objective, we propose ReFINE ($\textbf{Re}$inforced $\textbf{F}$ast we$\textbf{I}$ghts via $\textbf{N}$ext s$\textbf{E}$quence prediction). ReFINE selects informative token positions based on prediction entropy, generates multi-token rollouts, assigns sequence-level rewards, and optimizes the model with Group Relative Policy Optimization (GRPO). ReFINE is applicable throughout the training lifecycle of pre-trained language models: mid-training, post-training, and test-time training. Experiments on LaCT-760M and DeltaNet-1.3B show that ReFINE consistently outperforms NTP-based supervised fine-tuning in needle-in-a-haystack retrieval, long-context question answering, and diverse tasks in LongBench. ReFINE provides an effective and versatile framework for improving long-context modeling in fast weight architectures.

Spotlight
OmniEgoCap: Camera-Agnostic Sequence-Level Egocentric Motion Reconstruction

Kyungwon Cho, Jeonghyeon Na, Hanbyul Joo

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Commercial egocentric devices capture human behavior in everyday settings, yet full-body motion reconstruction must generalize across diverse cameras and mountings. This is challenging because head trajectories under-determine body motion, while hand observations are intermittent and camera-dependent: a hand may disappear simply because it has left the camera's field of view. Existing methods treat such absences as missing data, relying on fixed visibility regimes or post-hoc optimization, and fail to generalize across devices.We present \modelname, a sequence-level diffusion framework for device-agnostic egocentric full-body motion reconstruction. Our key insight is that egocentric videos contain sequence-level evidence about both the wearer and the camera-induced visibility structure, enabling \modelname to infer consistent body shape and coherent motion from sparse head and hand cues. To prevent overfitting to a single camera setup, we further introduce geometry-aware visibility augmentation, which synthesizes visibility patterns from realistic variations in camera geometry. We also present OmniEgoDB, the first mocap benchmark with ground-truth motion captured across multiple consumer egocentric devices. Experiments on synthetic, real-device, and in-the-wild settings demonstrate superior motion reconstruction, robust cross-device generalization, and coherent in-the-wild results.

Poster
Likelihood-free inference of phylogenetic tree posterior distributions

Luc Blassel, Noémie Sauvage, Pierre Barrat-Charlaix, Bastien Boussau, Nicolas Lartillot, Laurent Jacob

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Phylogenetic inference, the task of reconstructing how related sequences evolved from common ancestors, is a central objective in evolutionary genomics. The current state-of-the-art methods exploit probabilistic models of sequence evolution along phylogenetic trees, by searching for the tree maximizing the likelihood of observed sequences, or by estimating the posterior of the tree given the sequences in a Bayesian framework. Both approaches typically require to compute likelihoods, which is only feasible under simplifying assumptions such as independence of the evolution at the different positions of the sequence, and even then remains a costly operation. Here we present the first likelihood-free inference method for posterior distributions over phylogenies. It exploits a novel expressive encoding for pairs of sequences, and a parameterized probability distribution factorized over a succession of subtree merges. The resulting network provides well-calibrated estimates of the posterior distribution leading to more accurate tree topologies than existing methods, even under models amenable to likelihood computation. We further show that its edge against likelihood-based methods dramatically increases under models of sequence evolution with intractable likelihoods.

Poster