Daily Papers

Lane segment topology reasoning constructs a comprehensive road network by capturing the topological relationships between lane segments and their semantic types. This enables end-to-end autonomous driving systems to perform road-dependent maneuvers such as turning and lane changing. However, the limitations in consistent positional embedding and temporal multiple attribute learning in existing methods hinder accurate roadnet reconstruction. To address these issues, we propose TopoStreamer, an end-to-end temporal perception model for lane segment topology reasoning. Specifically, TopoStreamer introduces three key improvements: streaming attribute constraints, dynamic lane boundary positional encoding, and lane segment denoising. The streaming attribute constraints enforce temporal consistency in both centerline and boundary coordinates, along with their classifications. Meanwhile, dynamic lane boundary positional encoding enhances the learning of up-to-date positional information within queries, while lane segment denoising helps capture diverse lane segment patterns, ultimately improving model performance. Additionally, we assess the accuracy of existing models using a lane boundary classification metric, which serves as a crucial measure for lane-changing scenarios in autonomous driving. On the OpenLane-V2 dataset, TopoStreamer demonstrates significant improvements over state-of-the-art methods, achieving substantial performance gains of +3.0% mAP in lane segment perception and +1.7% OLS in centerline perception tasks.

Chess has long served as a canonical testbed for artificial intelligence, but modeling approaches for its central tasks have diverged. Maximizing playing strength, predicting human play, and enabling interpretability are typically solved with disparate architectures, and these designs are often misaligned with the geometry of the domain. This raises the natural question of whether these objectives require separate modeling paradigms, or if there exists a single architecture that supports them simultaneously. We introduce Chessformer, a unified architecture that advances the state of the art on all three central goals in chess modeling. Chessformer is an encoder-only transformer that represents board squares as tokens, augments self-attention with a novel dynamic positional encoding called Geometric Attention Bias (GAB) that adapts to domain-specific geometry, and predicts actions with an attention-based source-destination policy head. We evaluate Chessformer on each front. First, we develop \maiathree, a family of models for human move prediction that reaches 57.1\% move-matching accuracy, significantly surpassing the previous state of the art with fewer than a quarter of the parameters. Second, we integrate Chessformer into Leela Chess Zero, a leading open-source engine, adding over 100 Elo of playing strength and resulting in tournament victories over Stockfish in major computer chess competitions. Third, we show that Chessformer's square-token design makes attention patterns and activations directly attributable to board squares, enabling granular interpretability analyses that prior architectures do not naturally support. More broadly, our results demonstrate that aligning a model's tokenization, positional encoding, and output design with the underlying structure of a domain can yield simultaneous gains in performance, human compatibility, and interpretability.

Existing DiT-based audio-driven avatar generation methods have achieved considerable progress, yet their broader application is constrained by limitations such as high computational overhead and the inability to synthesize long-duration videos. Autoregressive methods address this problem by applying block-wise autoregressive diffusion methods. However, these methods suffer from the problem of error accumulation and quality degradation. To address this, we propose JoyAvatar, an audio-driven autoregressive model capable of real-time inference and infinite-length video generation with the following contributions: (1) Progressive Step Bootstrapping (PSB), which allocates more denoising steps to initial frames to stabilize generation and reduce error accumulation; (2) Motion Condition Injection (MCI), enhancing temporal coherence by injecting noise-corrupted previous frames as motion condition; and (3) Unbounded RoPE via Cache-Resetting (URCR), enabling infinite-length generation through dynamic positional encoding. Our 1.3B-parameter causal model achieves 16 FPS on a single GPU and achieves competitive results in visual quality, temporal consistency, and lip synchronization.

Transformers rely on explicit positional encoding to model structure in data. While Rotary Position Embedding (RoPE) excels in 1D domains, its application to image generation reveals significant limitations such as fine-grained spatial relation modeling, color cues, and object counting. This paper identifies key limitations of standard multi-dimensional RoPE-rigid frequency allocation, axis-wise independence, and uniform head treatment-in capturing the complex structural biases required for fine-grained image generation. We propose HARoPE, a head-wise adaptive extension that inserts a learnable linear transformation parameterized via singular value decomposition (SVD) before the rotary mapping. This lightweight modification enables dynamic frequency reallocation, semantic alignment of rotary planes, and head-specific positional receptive fields while rigorously preserving RoPE's relative-position property. Extensive experiments on class-conditional ImageNet and text-to-image generation (Flux and MMDiT) demonstrate that HARoPE consistently improves performance over strong RoPE baselines and other extensions. The method serves as an effective drop-in replacement, offering a principled and adaptable solution for enhancing positional awareness in transformer-based image generative models.

Transformers rely on both content-based and position-based addressing mechanisms to make predictions, but existing positional encoding techniques often diminish the effectiveness of position-based addressing. Many current methods enforce rigid patterns in attention maps, limiting the ability to model long-range dependencies and adapt to diverse tasks. Additionally, most positional encodings are learned as general biases, lacking the specialization required for different instances within a dataset. To address this, we propose conTextualized equivariAnt Position Embedding (TAPE), a novel framework that enhances positional embeddings by incorporating sequence content across layers. TAPE introduces dynamic, context-aware positional encodings, overcoming the constraints of traditional fixed patterns. By enforcing permutation and orthogonal equivariance, TAPE ensures the stability of positional encodings during updates, improving robustness and adaptability. Our method can be easily integrated into pre-trained transformers, offering parameter-efficient fine-tuning with minimal overhead. Extensive experiments shows that TAPE achieves superior performance in language modeling, arithmetic reasoning, and long-context retrieval tasks compared to existing positional embedding techniques.

In this paper, we target at the problem of learning a generalizable dynamic radiance field from monocular videos. Different from most existing NeRF methods that are based on multiple views, monocular videos only contain one view at each timestamp, thereby suffering from ambiguity along the view direction in estimating point features and scene flows. Previous studies such as DynNeRF disambiguate point features by positional encoding, which is not transferable and severely limits the generalization ability. As a result, these methods have to train one independent model for each scene and suffer from heavy computational costs when applying to increasing monocular videos in real-world applications. To address this, We propose MonoNeRF to simultaneously learn point features and scene flows with point trajectory and feature correspondence constraints across frames. More specifically, we learn an implicit velocity field to estimate point trajectory from temporal features with Neural ODE, which is followed by a flow-based feature aggregation module to obtain spatial features along the point trajectory. We jointly optimize temporal and spatial features in an end-to-end manner. Experiments show that our MonoNeRF is able to learn from multiple scenes and support new applications such as scene editing, unseen frame synthesis, and fast novel scene adaptation. Codes are available at https://github.com/tianfr/MonoNeRF.

Diffusion Transformer models can generate images with remarkable fidelity and detail, yet training them at ultra-high resolutions remains extremely costly due to the self-attention mechanism's quadratic scaling with the number of image tokens. In this paper, we introduce Dynamic Position Extrapolation (DyPE), a novel, training-free method that enables pre-trained diffusion transformers to synthesize images at resolutions far beyond their training data, with no additional sampling cost. DyPE takes advantage of the spectral progression inherent to the diffusion process, where low-frequency structures converge early, while high-frequencies take more steps to resolve. Specifically, DyPE dynamically adjusts the model's positional encoding at each diffusion step, matching their frequency spectrum with the current stage of the generative process. This approach allows us to generate images at resolutions that exceed the training resolution dramatically, e.g., 16 million pixels using FLUX. On multiple benchmarks, DyPE consistently improves performance and achieves state-of-the-art fidelity in ultra-high-resolution image generation, with gains becoming even more pronounced at higher resolutions. Project page is available at https://noamissachar.github.io/DyPE/.

Temporal Graph Neural Networks have garnered substantial attention for their capacity to model evolving structural and temporal patterns while exhibiting impressive performance. However, it is known that these architectures are encumbered by issues that constrain their performance, such as over-squashing and over-smoothing. Meanwhile, Transformers have demonstrated exceptional computational capacity to effectively address challenges related to long-range dependencies. Consequently, we introduce Todyformer-a novel Transformer-based neural network tailored for dynamic graphs. It unifies the local encoding capacity of Message-Passing Neural Networks (MPNNs) with the global encoding of Transformers through i) a novel patchifying paradigm for dynamic graphs to improve over-squashing, ii) a structure-aware parametric tokenization strategy leveraging MPNNs, iii) a Transformer with temporal positional-encoding to capture long-range dependencies, and iv) an encoding architecture that alternates between local and global contextualization, mitigating over-smoothing in MPNNs. Experimental evaluations on public benchmark datasets demonstrate that Todyformer consistently outperforms the state-of-the-art methods for downstream tasks. Furthermore, we illustrate the underlying aspects of the proposed model in effectively capturing extensive temporal dependencies in dynamic graphs.

As data propagates through a Transformer, the norm of its hidden states grows by orders of magnitude with depth, a phenomenon framed as 'curse of depth' and nearly universally treated as a pathology to be suppressed. We take the opposite view. Across 16 pre-trained LLMs from 9 families, spanning dense, mixture-of-experts and hybrid architectures and Pre-, Peri- and Post-Norm designs, we find that this growth reflects an emergent depth-positional encoding, carried by the only learned per-layer gain on the residual stream, the normalization weight γ: with depth, γ grows in magnitude and rotates in direction, jointly encoding the layer index. We make this depth-conditioned encoding explicit with LayerRoPE, an implicit analog of RoPE along the depth axis, which replaces all layerwise γ vectors with a single shared vector and depth-conditioned scalars, at a net reduction in parameters and <0.02% change in FLOPs. Across a model ladder scaled up to 100B+ tokens, LayerRoPE consistently outperforms Pre-, Post- and Peri-Norm and Layer-Norm Scaling, reaching Pre-Norm's 1.3B loss with 3.4times less compute; LayerRoPE is the only approach that shows strong convergence and improves near monotonically as depth scales to 512 layers. It improves learning-rate sensitivity by 3-10times, and transfers naively to and consistently improves looped latent models and Vision Transformers. Inspecting its learned schedule inverts the prevailing premise: LayerRoPE does not shrink the residual stream but widens it, damping what each block reads while amplifying what it writes. Depth stability, our results suggest, calls not for suppressing the residual stream, but for depth-conditioned regulation of the computational blocks it feeds.

Autoregressive models, such as the GPT family, use a fixed order, usually left-to-right, to generate sequences. However, this is not a necessity. In this paper, we challenge this assumption and show that by simply adding a positional encoding for the output, this order can be modulated on-the-fly per-sample which offers key advantageous properties. It allows for the sampling of and conditioning on arbitrary subsets of tokens, and it also allows sampling in one shot multiple tokens dynamically according to a rejection strategy, leading to a sub-linear number of model evaluations. We evaluate our method across various domains, including language modeling, path-solving, and aircraft vertical rate prediction, decreasing the number of steps required for generation by an order of magnitude.

his paper tackles a significant challenge faced by Vision Transformers (ViTs): their constrained scalability across different image resolutions. Typically, ViTs experience a performance decline when processing resolutions different from those seen during training. Our work introduces two key innovations to address this issue. Firstly, we propose a novel module for dynamic resolution adjustment, designed with a single Transformer block, specifically to achieve highly efficient incremental token integration. Secondly, we introduce fuzzy positional encoding in the Vision Transformer to provide consistent positional awareness across multiple resolutions, thereby preventing overfitting to any single training resolution. Our resulting model, ViTAR (Vision Transformer with Any Resolution), demonstrates impressive adaptability, achieving 83.3\% top-1 accuracy at a 1120x1120 resolution and 80.4\% accuracy at a 4032x4032 resolution, all while reducing computational costs. ViTAR also shows strong performance in downstream tasks such as instance and semantic segmentation and can easily combined with self-supervised learning techniques like Masked AutoEncoder. Our work provides a cost-effective solution for enhancing the resolution scalability of ViTs, paving the way for more versatile and efficient high-resolution image processing.

Recent advancements in Large Vision-Language Models built upon Large Language Models have established aligning visual features with LLM representations as the dominant paradigm. However, inherited LLM architectural designs introduce suboptimal characteristics for multimodal processing. First, LVLMs exhibit a bimodal distribution in attention allocation, leading to the progressive neglect of middle visual content as context expands. Second, conventional positional encoding schemes fail to preserve vital 2D structural relationships when processing dynamic high-resolution images. To address these limitations, we propose CoMemo - a dual-path architecture that combines a Context image path with an image Memory path for visual processing, effectively alleviating visual information neglect. Additionally, we introduce RoPE-DHR, a novel positional encoding mechanism that employs thumbnail-based positional aggregation to maintain 2D spatial awareness while mitigating remote decay in extended sequences. Evaluations across seven benchmarks,including long-context comprehension, multi-image reasoning, and visual question answering, demonstrate CoMemo's superior performance compared to conventional LVLM architectures. Project page is available at https://lalbj.github.io/projects/CoMemo/.

Current video-to-4D methods struggle with complex topology changes, transparent materials, thin structures, and inner surfaces. We present Helix4D, a dynamic mesh generation framework by inheriting the expressive representation of Trellis2, adapting it from image-to-3D to video-conditioned 4D generation. Our design arises from two key questions: (a) how to enable Trellis2's frame-local attention to share information across frames while preserving its pretrained quality on rare cases such as transparent objects and inner surfaces, and (b) how to inject temporal information into a purely 3D positional encoding without breaking pretrained capabilities. We address (a) with a sliding-window cross-frame attention and anchor on the first frame. The first frame is generated by the base Trellis2 model and injected into our model, letting it inherit Trellis2's quality in rare cases through cross-frame attention. We address (b) with a 4D temporal encoding that repurposes redundant low-frequency spatial RoPE bands for time, extending the encoding from 3D with no additional parameters. Extensive experiments show the effectiveness of Helix4D for high-quality dynamic mesh generation on ActionBench and our own challenging complex dynamics set.

The quadratic computational cost of processing vision tokens in Multimodal Large Language Models (MLLMs) hinders their widespread adoption. While progressive vision token pruning offers a promising solution, current methods misinterpret shallow layer functions and use rigid schedules, which fail to unlock the full efficiency potential. To address these issues, we propose HiDrop, a framework that aligns token pruning with the true hierarchical function of MLLM layers. HiDrop features two key innovations: (1) Late Injection, which bypasses passive shallow layers to introduce visual tokens exactly where active fusion begins; and (2) Concave Pyramid Pruning with an Early Exit mechanism to dynamically adjust pruning rates across middle and deep layers. This process is optimized via an inter-layer similarity measure and a differentiable top-k operator. To ensure practical efficiency, HiDrop further incorporates persistent positional encoding, FlashAttention-compatible token selection, and parallel decoupling of vision computation to eliminate hidden overhead associated with dynamic token reduction. Extensive experiments show that HiDrop compresses about 90% visual tokens while matching the original performance and accelerating training by 1.72 times. Our work not only sets a new state-of-the-art for efficient MLLM training and inference but also provides valuable insights into the hierarchical nature of multimodal fusion. The code is released at https://github.com/EIT-NLP/HiDrop.

Recurrent models have been dominating the field of neural machine translation (NMT) for the past few years. Transformers vaswani2017attention, have radically changed it by proposing a novel architecture that relies on a feed-forward backbone and self-attention mechanism. Although Transformers are powerful, they could fail to properly encode sequential/positional information due to their non-recurrent nature. To solve this problem, position embeddings are defined exclusively for each time step to enrich word information. However, such embeddings are fixed after training regardless of the task and the word ordering system of the source or target language. In this paper, we propose a novel architecture with new position embeddings depending on the input text to address this shortcoming by taking the order of target words into consideration. Instead of using predefined position embeddings, our solution generates new embeddings to refine each word's position information. Since we do not dictate the position of source tokens and learn them in an end-to-end fashion, we refer to our method as dynamic position encoding (DPE). We evaluated the impact of our model on multiple datasets to translate from English into German, French, and Italian and observed meaningful improvements in comparison to the original Transformer.

Attentional mechanisms are order-invariant. Positional encoding is a crucial component to allow attention-based deep model architectures such as Transformer to address sequences or images where the position of information matters. In this paper, we propose a novel positional encoding method based on learnable Fourier features. Instead of hard-coding each position as a token or a vector, we represent each position, which can be multi-dimensional, as a trainable encoding based on learnable Fourier feature mapping, modulated with a multi-layer perceptron. The representation is particularly advantageous for a spatial multi-dimensional position, e.g., pixel positions on an image, where L_2 distances or more complex positional relationships need to be captured. Our experiments based on several public benchmark tasks show that our learnable Fourier feature representation for multi-dimensional positional encoding outperforms existing methods by both improving the accuracy and allowing faster convergence.

Recent studies have demonstrated the effectiveness of position encoding in transformer architectures. By incorporating positional information, this approach provides essential guidance for modeling dependencies between elements across different sequence positions. We introduce CoPE (a lightweight Complex Positional Encoding), a novel architecture that leverages complex-valued encoding to encode both content and positional information. Our approach replaces traditional positional encodings with complex embeddings where the real part captures semantic content and the imaginary part encodes positional information. We introduce phase-aware attention in the first layer of the transformer model to capture position-dependent patterns, followed by standard attention layers for higher-levels. We show that CoPE doesn't exhibit long term decay and is compatible with linear attention. Experimental evaluation on the GLUE benchmark suggest that our approach achieves superior performance with less computational complexity, compared to RoPE, Sinusoidal and Learned positional encodings.

Positional encoding mechanisms enable Transformers to model sequential structure and long-range dependencies in text. While absolute positional encodings struggle with extrapolation to longer sequences due to fixed positional representations, and relative approaches like Alibi exhibit performance degradation on extremely long contexts, the widely-used Rotary Positional Encoding (RoPE) introduces oscillatory attention patterns that hinder stable long-distance dependency modelling. We address these limitations through a geometric reformulation of positional encoding. Drawing inspiration from Lorentz transformations in hyperbolic geometry, we propose Hyperbolic Rotary Positional Encoding (HoPE), which leverages hyperbolic functions to implement Lorentz rotations on token representations. Theoretical analysis demonstrates that RoPE is a special case of our generalized formulation. HoPE fundamentally resolves RoPE's slation issues by enforcing monotonic decay of attention weights with increasing token distances. Extensive experimental results, including perplexity evaluations under several extended sequence benchmarks, show that HoPE consistently exceeds existing positional encoding methods. These findings underscore HoPE's enhanced capacity for representing and generalizing long-range dependencies. Data and code will be available.

It is well noted that coordinate based MLPs benefit -- in terms of preserving high-frequency information -- through the encoding of coordinate positions as an array of Fourier features. Hitherto, the rationale for the effectiveness of these positional encodings has been solely studied through a Fourier lens. In this paper, we strive to broaden this understanding by showing that alternative non-Fourier embedding functions can indeed be used for positional encoding. Moreover, we show that their performance is entirely determined by a trade-off between the stable rank of the embedded matrix and the distance preservation between embedded coordinates. We further establish that the now ubiquitous Fourier feature mapping of position is a special case that fulfills these conditions. Consequently, we present a more general theory to analyze positional encoding in terms of shifted basis functions. To this end, we develop the necessary theoretical formulae and empirically verify that our theoretical claims hold in practice. Codes available at https://github.com/osiriszjq/Rethinking-positional-encoding.

We propose a conditional positional encoding (CPE) scheme for vision Transformers. Unlike previous fixed or learnable positional encodings, which are pre-defined and independent of input tokens, CPE is dynamically generated and conditioned on the local neighborhood of the input tokens. As a result, CPE can easily generalize to the input sequences that are longer than what the model has ever seen during training. Besides, CPE can keep the desired translation-invariance in the image classification task, resulting in improved performance. We implement CPE with a simple Position Encoding Generator (PEG) to get seamlessly incorporated into the current Transformer framework. Built on PEG, we present Conditional Position encoding Vision Transformer (CPVT). We demonstrate that CPVT has visually similar attention maps compared to those with learned positional encodings and delivers outperforming results. Our code is available at https://github.com/Meituan-AutoML/CPVT .

Positional encoding (PE) underpins how permutation-invariant Transformers represent sequence order, yet how positional information is processed and stored remains poorly understood. Modern PE methods such as RoPE still struggle on tasks such as long-context understanding or retrieval chen-etal-2025-hope. Hence, a better understanding of the internal positional mechanism could help design better PE. Building on evidence that positional and semantic signals occupy nearly orthogonal subspaces in trained Transformers, we modify an encoder Transformer to process three explicitly disentangled streams: semantic, absolute positional (AP) and relative positional (RP), and confine the masked-language-modeling (MLM) objective to the semantic stream. This decoupling enables a clean mechanistic study and yields three take-aways. (1) The isolated AP subspace spontaneously collapses into a low-frequency two-dimensional manifold that captures the structure of the document; (2) Attention heads specialize into structure and semantic-oriented groups, with RP exclusively supporting the latter; (3) Standard positional encodings do not robustly retain macroscopic structure: RoPE and RP only weakly encode it, and entangled AP loses it in the final layers under MLM pressure. The disentangled approach preserves positional encoding, which improves linguistic representation on 49 of the 65 linguistic phenomena of the Flash-Holmes probing benchmark.

In this work, we leverage the intrinsic segmentation of language sequences and design a new positional encoding method called Bilevel Positional Encoding (BiPE). For each position, our BiPE blends an intra-segment encoding and an inter-segment encoding. The intra-segment encoding identifies the locations within a segment and helps the model capture the semantic information therein via absolute positional encoding. The inter-segment encoding specifies the segment index, models the relationships between segments, and aims to improve extrapolation capabilities via relative positional encoding. Theoretical analysis shows this disentanglement of positional information makes learning more effective. The empirical results also show that our BiPE has superior length extrapolation capabilities across a wide range of tasks in diverse text modalities.

Modeling spatiotemporal coupling is a key challenge in building physical intelligence across scales, from microscopic to macroscopic. Existing models capture such structure broadly through physics-motivated dynamical formulations or learning-motivated architectures. The former provide stronger priors but may constrain flexibility, whereas the latter are more flexible but leave the spatiotemporal coupling largely implicit. We therefore seek an approach that combines flexible learning with an explicit geometric bias for jointly modeling time and space. To this end, we propose Minkowski Positional Encoding (MinkowskiPE), which uses joint temporal and spatial coordinates to parameterize Lorentz transformations applied to query and key features. With MinkowskiPE, the query-key attention score depends on position only through the relative spacetime displacement between the two tokens and is therefore invariant to global translation of the coordinates. This paradigm retains the standard dot-product attention interface and remains compatible with efficient attention implementations. We evaluate MinkowskiPE on microscopic molecular dynamics and macroscopic video prediction tasks, achieving the best results on all nine multi-trajectory molecular evaluations and reducing KTH video-prediction MSE by 9.9% relative to the best baseline while using roughly one-tenth as many parameters.

Positional Encodings (PEs) are a critical component of Transformer-based Large Language Models (LLMs), providing the attention mechanism with important sequence-position information. One of the most popular types of encoding used today in LLMs are Rotary Positional Encodings (RoPE), that rotate the queries and keys based on their relative distance. A common belief is that RoPE is useful because it helps to decay token dependency as relative distance increases. In this work, we argue that this is unlikely to be the core reason. We study the internals of a trained Gemma 7B model to understand how RoPE is being used at a mechanical level. We find that Gemma learns to use RoPE to construct robust "positional" attention patterns by exploiting the highest frequencies. We also find that, in general, Gemma greatly prefers to use the lowest frequencies of RoPE, which we suspect are used to carry semantic information. We mathematically prove interesting behaviours of RoPE and conduct experiments to verify our findings, proposing a modification of RoPE that fixes some highlighted issues and improves performance. We believe that this work represents an interesting step in better understanding PEs in LLMs, which we believe holds crucial value for scaling LLMs to large sizes and context lengths.

Sequence learning reduces to similarity-based retrieval over a temporally indexed representation space, a constraint on any sequence model, not a property of a specific architecture. We show that a spiking Sparse Distributed Memory sequence machine (2007) and the transformer (2017) independently instantiate the same five functional operations (encoding, context maintenance, associative retrieval, storage, and decoding), with cosine similarity as the shared retrieval primitive in both. We formalise a Phase-Latency Isomorphism showing that sinusoidal positional phase and spike timing are linearly related, and prove that dot product attention is invariant to this mapping up to a global scale factor on the positional component (Lemma 1). Empirically, frequency-compressed positional encoding fails to converge on a positionally demanding copy task, while a learned rank-based embedding matches or exceeds sinusoidal encoding, indicating that the critical property for positional representation is distance discriminability under dot-product similarity, not sinusoidal form. Time, phase, and rank are three instantiations of the same computational primitive, an ordered index whose structure survives similarity-based retrieval.

Many positional encodings (PEs) are designed to exhibit long-term decay, based on an entrenched and long-standing inductive opinion: tokens farther away from the current position carry less relevant information. We argue that long-term decay is outdated in the era of LLMs, as LLMs are now applied to tasks demanding precise retrieval of in-context information from arbitrary positions. Firstly, we present empirical analyses on various PEs, demonstrating that models inherently learn attention with only a local-decay pattern while forming a U-shape pattern globally, contradicting the principle of long-term decay. Furthermore, we conduct a detailed analysis of rotary position encoding (RoPE, a prevalent relative positional encoding in LLMs), and found that the U-shape attention is caused by some learned components, which are also the key factor limiting RoPE's expressiveness and extrapolation.Inspired by these insights, we propose High-frequency rotary Position Encoding (HoPE). HoPE replaces the specific components in RoPE with position-independent ones, retaining only high-frequency signals, which also breaks the principle of long-term decay in theory. HoPE achieves two major advantages: (1) Without constraints imposed by long-term decay, contradictory factors that limit spontaneous attention optimization and model extrapolation performance are removed. (2) Components representing positions and semantics are are optimized. These enhances model's context awareness and extrapolation, as validated by extensive experiments.

Since self-attention layers in Transformers are permutation invariant by design, positional encodings must be explicitly incorporated to enable spatial understanding. However, fixed-size lookup tables used in traditional learnable position embeddings (PEs) limit extrapolation capabilities beyond pre-trained sequence lengths. Expert-designed methods such as ALiBi and RoPE, mitigate this limitation but demand extensive modifications for adapting to new modalities, underscoring fundamental challenges in adaptability and scalability. In this work, we present SeqPE, a unified and fully learnable position encoding framework that represents each n-dimensional position index as a symbolic sequence and employs a lightweight sequential position encoder to learn their embeddings in an end-to-end manner. To regularize SeqPE's embedding space, we introduce two complementary objectives: a contrastive objective that aligns embedding distances with a predefined position-distance function, and a knowledge distillation loss that anchors out-of-distribution position embeddings to in-distribution teacher representations, further enhancing extrapolation performance. Experiments across language modeling, long-context question answering, and 2D image classification demonstrate that SeqPE not only surpasses strong baselines in perplexity, exact match (EM), and accuracy--particularly under context length extrapolation--but also enables seamless generalization to multi-dimensional inputs without requiring manual architectural redesign. We release our code, data, and checkpoints at https://github.com/ghrua/seqpe.

The attention mechanism is a critical component of Large Language Models (LLMs) that allows tokens in a sequence to interact with each other, but is order-invariant. Incorporating position encoding (PE) makes it possible to address by position, such as attending to the i-th token. However, current PE methods use token counts to derive position, and thus cannot generalize to higher levels of abstraction, such as attending to the i-th sentence. In this paper, we propose a new position encoding method, Contextual Position Encoding (CoPE), that allows positions to be conditioned on context by incrementing position only on certain tokens determined by the model. This allows more general position addressing such as attending to the i-th particular word, noun, or sentence. We show that CoPE can solve the selective copy, counting and Flip-Flop tasks where popular position embeddings fail, and improves perplexity on language modeling and coding tasks.

Transformer architecture has shown impressive performance in multiple research domains and has become the backbone of many neural network models. However, there is limited understanding on how it works. In particular, with a simple predictive loss, how the representation emerges from the gradient training dynamics remains a mystery. In this paper, for 1-layer transformer with one self-attention layer plus one decoder layer, we analyze its SGD training dynamics for the task of next token prediction in a mathematically rigorous manner. We open the black box of the dynamic process of how the self-attention layer combines input tokens, and reveal the nature of underlying inductive bias. More specifically, with the assumption (a) no positional encoding, (b) long input sequence, and (c) the decoder layer learns faster than the self-attention layer, we prove that self-attention acts as a discriminative scanning algorithm: starting from uniform attention, it gradually attends more to distinct key tokens for a specific next token to be predicted, and pays less attention to common key tokens that occur across different next tokens. Among distinct tokens, it progressively drops attention weights, following the order of low to high co-occurrence between the key and the query token in the training set. Interestingly, this procedure does not lead to winner-takes-all, but decelerates due to a phase transition that is controllable by the learning rates of the two layers, leaving (almost) fixed token combination. We verify this \emph{scan and snap} dynamics on synthetic and real-world data (WikiText).

We introduce Brain-JEPA, a brain dynamics foundation model with the Joint-Embedding Predictive Architecture (JEPA). This pioneering model achieves state-of-the-art performance in demographic prediction, disease diagnosis/prognosis, and trait prediction through fine-tuning. Furthermore, it excels in off-the-shelf evaluations (e.g., linear probing) and demonstrates superior generalizability across different ethnic groups, surpassing the previous large model for brain activity significantly. Brain-JEPA incorporates two innovative techniques: Brain Gradient Positioning and Spatiotemporal Masking. Brain Gradient Positioning introduces a functional coordinate system for brain functional parcellation, enhancing the positional encoding of different Regions of Interest (ROIs). Spatiotemporal Masking, tailored to the unique characteristics of fMRI data, addresses the challenge of heterogeneous time-series patches. These methodologies enhance model performance and advance our understanding of the neural circuits underlying cognition. Overall, Brain-JEPA is paving the way to address pivotal questions of building brain functional coordinate system and masking brain activity at the AI-neuroscience interface, and setting a potentially new paradigm in brain activity analysis through downstream adaptation.

Spectral bias is an important observation of neural network training, stating that the network will learn a low frequency representation of the target function before converging to higher frequency components. This property is interesting due to its link to good generalization in over-parameterized networks. However, in low dimensional settings, a severe spectral bias occurs that obstructs convergence to high frequency components entirely. In order to overcome this limitation, one can encode the inputs using a high frequency sinusoidal encoding. Previous works attempted to explain this phenomenon using Neural Tangent Kernel (NTK) and Fourier analysis. However, NTK does not capture real network dynamics, and Fourier analysis only offers a global perspective on the network properties that induce this bias. In this paper, we provide a novel approach towards understanding spectral bias by directly studying ReLU MLP training dynamics. Specifically, we focus on the connection between the computations of ReLU networks (activation regions), and the speed of gradient descent convergence. We study these dynamics in relation to the spatial information of the signal to understand how they influence spectral bias. We then use this formulation to study the severity of spectral bias in low dimensional settings, and how positional encoding overcomes this.

We introduce NerVE, a unified eigenspectral framework for understanding how feed-forward networks (FFNs) in large language models (LLMs) organize and regulate information flow in high-dimensional latent space. Despite FFNs dominating the parameter budget, their high-dimensional dynamics remain poorly understood. NerVE addresses this gap through lightweight, memory-efficient tracking of eigenspectrum dynamics via four complementary metrics: Spectral Entropy (dispersion), Participation Ratio (effective dimensionality), Eigenvalue Early Enrichment (top-heaviness), and Jensen-Shannon divergence (distributional shifts). Our key insight is that FFN nonlinearities reinject variance across eigenmodes, fundamentally governing latent dimension utilization, and that optimizer geometry strongly modulates the extent of this variance reinjection. We validate NerVE across model scales, and diverse architectural and optimizer configurations, each uniquely shaping FFN dynamics: normalization schemes controlling variance flow; FFN weight geometries constraining latent space; positional encoding and activation functions regulating information flow; and optimizer choices redistributing effective capacity across depth. Across these settings, NerVE consistently recovers stable spectral signatures that correlate with model's generalization ability and respond predictably to design choices, generalizing beyond transformer to MLP-Mixer architectures, providing actionable insights for architectural and optimizer choices beyond trial-and-error.

We propose an effective field-theoretic framework for analyzing Transformer attention through a thermodynamic lens. By constructing a Lagrangian on the information manifold equipped with the Fisher metric, we show that, within the Shannon--Boltzmann entropy framework, the Softmax function arises as a stationary solution minimizing a Helmholtz free energy functional. This establishes a formal correspondence between scaled dot-product attention and canonical ensemble statistics. Extending this mapping to macroscopic observables, we define an effective specific heat associated with fluctuations of the attention energy landscape. In controlled experiments on the modular addition task (p = 19--113), we observe a robust peak in this fluctuation measure that consistently precedes the onset of generalization. While no asymptotic power-law divergence is detected in this finite-depth regime, the reproducible enhancement of energy variance suggests a critical-like crossover accompanying representational reorganization. Our framework provides a unified statistical-mechanical perspective on attention scaling, training dynamics, and positional encoding, interpreting the phenomena as emergent properties of an effective thermodynamic system rather than isolated heuristics. Although the present results indicate finite-size crossover behavior rather than a strict phase transition, they motivate further investigation into scaling limits of deep architectures through fluctuation-based observables.

Many dynamical processes unfold on the sphere but the default scientific machine learning architectures are Euclidean. Applying these architectures on a regular lat-lon grid causes problems: Cartesian convolutions become distorted at high latitude; 2D FFTs in Fourier neural operators incorrectly assume double periodicity; Cartesian positional encodings in ViTs distort spherical geodesic distances. Recent work moves towards natively spherical primitives, including spherical convolutions (e.g., DeepSphere or DISCO), Spherical Fourier Neural Operators (SFNOs), and geodesic attention. Here we propose Dandelion, a spherical version of Flower, a warp-based neural PDE solver. Layers of Dandelion predict a tangent-plane displacement and transport features along great circles. We obtain a U-Net-like structure by implementing hierarchical pooling entirely in the spherical-harmonic domain. There are thus no convolutions: spatial mixing is achieved only through spherical coordinate changes, or warps. To compare Dandelion with existing spherical architectures, we release an evolving benchmark suite of challenging, natively-spherical PDE datasets including a modified Galewsky jet, anomalous chained turbulence, Cahn-Hilliard decomposition, spherical Riemann shocks, Held-Suarez dry atmospheric transport and global ocean dynamics. This new benchmark fills the gap in existing spherical datasets which are either too small and stylized, or much too large (ERA5) for model iteration. Dandelion is best or second-best on every dataset, and the gap to non-warp baselines widens with resolution: at 256times 512, Dandelion and Flower2D occupy the top two slots in both single-step prediction and rollout.

A unified foundation model for medical time series -- pretrained on open access and ethics board-approved medical corpora -- offers the potential to reduce annotation burdens, minimize model customization, and enable robust transfer across clinical institutions, modalities, and tasks, particularly in data-scarce or privacy-constrained environments. However, existing generalist time series foundation models struggle to handle medical time series data due to their inherent challenges, including irregular intervals, heterogeneous sampling rates, and frequent missing values. To address these challenges, we introduce MIRA, a unified foundation model specifically designed for medical time series forecasting. MIRA incorporates a Continuous-Time Rotary Positional Encoding that enables fine-grained modeling of variable time intervals, a frequency-specific mixture-of-experts layer that routes computation across latent frequency regimes to further promote temporal specialization, and a Continuous Dynamics Extrapolation Block based on Neural ODE that models the continuous trajectory of latent states, enabling accurate forecasting at arbitrary target timestamps. Pretrained on a large-scale and diverse medical corpus comprising over 454 billion time points collect from publicly available datasets, MIRA achieves reductions in forecasting errors by an average of 10% and 7% in out-of-distribution and in-distribution scenarios, respectively, when compared to other zero-shot and fine-tuned baselines. We also introduce a comprehensive benchmark spanning multiple downstream clinical tasks, establishing a foundation for future research in medical time series modeling.

Effective and generalizable control in video generation remains a significant challenge. While many methods rely on ambiguous or task-specific signals, we argue that a fundamental disentanglement of "appearance" and "motion" provides a more robust and scalable pathway. We propose FlexAM, a unified framework built upon a novel 3D control signal. This signal represents video dynamics as a point cloud, introducing three key enhancements: multi-frequency positional encoding to distinguish fine-grained motion, depth-aware positional encoding, and a flexible control signal for balancing precision and generative quality. This representation allows FlexAM to effectively disentangle appearance and motion, enabling a wide range of tasks including I2V/V2V editing, camera control, and spatial object editing. Extensive experiments demonstrate that FlexAM achieves superior performance across all evaluated tasks.

Simulating physics using Graph Neural Networks (GNNs) is predominantly driven by message-passing architectures, which face challenges in scaling and efficiency, particularly in handling large, complex meshes. These architectures have inspired numerous enhancements, including multigrid approaches and K-hop aggregation (using neighbours of distance K), yet they often introduce significant complexity and suffer from limited in-depth investigations. In response to these challenges, we propose a novel Graph Transformer architecture that leverages the adjacency matrix as an attention mask. The proposed approach incorporates innovative augmentations, including Dilated Sliding Windows and Global Attention, to extend receptive fields without sacrificing computational efficiency. Through extensive experimentation, we evaluate model size, adjacency matrix augmentations, positional encoding and K-hop configurations using challenging 3D computational fluid dynamics (CFD) datasets. We also train over 60 models to find a scaling law between training FLOPs and parameters. The introduced models demonstrate remarkable scalability, performing on meshes with up to 300k nodes and 3 million edges. Notably, the smallest model achieves parity with MeshGraphNet while being 7times faster and 6times smaller. The largest model surpasses the previous state-of-the-art by 38.8\% on average and outperforms MeshGraphNet by 52\% on the all-rollout RMSE, while having a similar training speed. Code and datasets are available at https://github.com/DonsetPG/graph-physics.

Positional encodings are a core part of transformer-based models, enabling processing of sequential data without recurrence. This paper presents a theoretical framework to analyze how various positional encoding methods, including sinusoidal, learned, relative, and bias-based methods like Attention with Linear Biases (ALiBi), impact a transformer's expressiveness, generalization ability, and extrapolation to longer sequences. Expressiveness is defined via function approximation, generalization bounds are established using Rademacher complexity, and new encoding methods based on orthogonal functions, such as wavelets and Legendre polynomials, are proposed. The extrapolation capacity of existing and proposed encodings is analyzed, extending ALiBi's biasing approach to a unified theoretical context. Experimental evaluation on synthetic sequence-to-sequence tasks shows that orthogonal transform-based encodings outperform traditional sinusoidal encodings in generalization and extrapolation. This work addresses a critical gap in transformer theory, providing insights for design choices in natural language processing, computer vision, and other transformer applications.

We propose Parabolic Position Encoding (PaPE), a parabola-based position encoding for vision modalities in attention-based architectures. Given a set of vision tokens-such as images, point clouds, videos, or event camera streams-our objective is to encode their positions while accounting for the characteristics of vision modalities. Prior works have largely extended position encodings from 1D-sequences in language to nD-structures in vision, but only with partial account of vision characteristics. We address this gap by designing PaPE from principles distilled from prior work: translation invariance, rotation invariance (PaPE-RI), distance decay, directionality, and context awareness. We evaluate PaPE on 8 datasets that span 4 modalities. We find that either PaPE or PaPE-RI achieves the top performance on 7 out of 8 datasets. Extrapolation experiments on ImageNet-1K show that PaPE extrapolates remarkably well, improving in absolute terms by up to 10.5% over the next-best position encoding. Code is available at https://github.com/DTU-PAS/parabolic-position-encoding.

Transformers have impressive generalization capabilities on tasks with a fixed context length. However, they fail to generalize to sequences of arbitrary length, even for seemingly simple tasks such as duplicating a string. Moreover, simply training on longer sequences is inefficient due to the quadratic computation complexity of the global attention mechanism. In this work, we demonstrate that this failure mode is linked to positional encodings being out-of-distribution for longer sequences (even for relative encodings) and introduce a novel family of positional encodings that can overcome this problem. Concretely, our randomized positional encoding scheme simulates the positions of longer sequences and randomly selects an ordered subset to fit the sequence's length. Our large-scale empirical evaluation of 6000 models across 15 algorithmic reasoning tasks shows that our method allows Transformers to generalize to sequences of unseen length (increasing test accuracy by 12.0% on average).

We present methodology for using dynamic evaluation to improve neural sequence models. Models are adapted to recent history via a gradient descent based mechanism, causing them to assign higher probabilities to re-occurring sequential patterns. Dynamic evaluation outperforms existing adaptation approaches in our comparisons. Dynamic evaluation improves the state-of-the-art word-level perplexities on the Penn Treebank and WikiText-2 datasets to 51.1 and 44.3 respectively, and the state-of-the-art character-level cross-entropies on the text8 and Hutter Prize datasets to 1.19 bits/char and 1.08 bits/char respectively.

Deep sequence models typically degrade in accuracy when test sequences significantly exceed their training lengths, yet many critical tasks--such as algorithmic reasoning, multi-step arithmetic, and compositional generalization--require robust length extrapolation. We introduce PRISM, a Probabilistic Relative-position Implicit Superposition Model, a novel positional encoding mechanism that enables Transformers to extrapolate accurately up to 10x beyond their training length. PRISM learns continuous relative positions through a differentiable histogram-filter update, preserving position uncertainty via a probabilistic superposition rather than conventional deterministic embeddings. Empirically, PRISM achieves state-of-the-art length extrapolation, successfully generalizing to previously intractable sequence lengths across algorithmic benchmarks--including arithmetic (addition, multiplication), SCAN compositionality tasks, and complex copy variants derived from DeepMind's recent datasets. Our analysis demonstrates that PRISM's stochastic positional encoding maintains sharp and interpretable internal states, providing a theoretical basis for reliable length generalization. These results advance the goal of neural sequence models that remain algorithmically robust at lengths far exceeding their training horizon.

The attention mechanism is a core primitive in modern large language models (LLMs) and AI more broadly. Since attention by itself is permutation-invariant, position encoding is essential for modeling structured domains such as language. Rotary position encoding (RoPE) has emerged as the de facto standard approach for position encoding and is part of many modern LLMs. However, in RoPE the key/query transformation between two elements in a sequence is only a function of their relative position and otherwise independent of the actual input. This limits the expressivity of RoPE-based transformers. This paper describes PaTH, a flexible data-dependent position encoding scheme based on accumulated products of Householder(like) transformations, where each transformation is data-dependent, i.e., a function of the input. We derive an efficient parallel algorithm for training through exploiting a compact representation of products of Householder matrices, and implement a FlashAttention-style blockwise algorithm that minimizes I/O cost. Across both targeted synthetic benchmarks and moderate-scale real-world language modeling experiments, we find that PaTH demonstrates superior performance compared to RoPE and other recent baselines.

We present a Transformer architecture for long-context language modeling that combines global attention with two biologically inspired components: chunked local attention and a gated FIFO memory mechanism. This unified attention block allows the model to efficiently handle both short-range and long-range dependencies without increasing attention cost quadratically. The memory module persistently stores past token representations using a gated update mechanism inspired by recurrent networks. Rotary positional encoding is applied per attention head to enable directionally disentangled, scale-invariant positional signals. The architecture is implemented entirely from scratch in PyTorch, with no reliance on high-level libraries, enabling transparent and modular experimentation. Our model offers a lightweight and extensible design for tasks such as dialogue modeling, code completion, and document understanding.

Recent studies show that paddings in convolutional neural networks encode absolute position information which can negatively affect the model performance for certain tasks. However, existing metrics for quantifying the strength of positional information remain unreliable and frequently lead to erroneous results. To address this issue, we propose novel metrics for measuring (and visualizing) the encoded positional information. We formally define the encoded information as PPP (Position-information Pattern from Padding) and conduct a series of experiments to study its properties as well as its formation. The proposed metrics measure the presence of positional information more reliably than the existing metrics based on PosENet and a test in F-Conv. We also demonstrate that for any extant (and proposed) padding schemes, PPP is primarily a learning artifact and is less dependent on the characteristics of the underlying padding schemes.

Linear attention mechanisms have gained prominence in causal language models due to their linear computational complexity and enhanced speed. However, the inherent decay mechanism in linear attention presents challenges when applied to multi-dimensional sequence modeling tasks, such as image processing and multi-modal learning. In these scenarios, the utilization of sequential scanning to establish a global receptive field necessitates multiple scans for multi-dimensional data, thereby leading to inefficiencies. This paper identifies the inefficiency caused by a multiplicative linear recurrence and proposes an efficient alternative additive linear recurrence to avoid the issue, as it can handle multi-dimensional data within a single scan. We further develop an efficient multi-dimensional sequential modeling framework called LightNet based on the new recurrence. Moreover, we present two new multi-dimensional linear relative positional encoding methods, MD-TPE and MD-LRPE to enhance the model's ability to discern positional information in multi-dimensional scenarios. Our empirical evaluations across various tasks, including image classification, image generation, bidirectional language modeling, and autoregressive language modeling, demonstrate the efficacy of LightNet, showcasing its potential as a versatile and efficient solution for multi-dimensional sequential modeling.

Rotary Positional Encodings (RoPE) are currently the most popular positional encodings used in modern language models. RoPE rotates two-dimensional chunks of query and key vectors, operating as a function of their relative positional offset. The position-wise rates of rotation in RoPE typically follow a geometric sequence specified by a fixed base-frequency hyperparameter. Prior work has improved performance by either increasing this parameter to slow rotation or by applying RoPE to only a subset of QK dimensions. In this work we modify RoPE by learning a scalar per frequency, treating frequencies as learnable parameters rather than hyperparameters. We validate Learned RoPE by training a ladder of language models from scratch, ranging from 52M to 2.5B parameters. We observe and analyze the emergence of a high-norm, positional LeRoPE band. LeRoPE consistently outperforms RoPE and partial RoPE across all scales, with RoPE requiring 3.4% more compute (FLOPs) to match LeRoPE at the largest scale.

In the realm of large-scale language models, a significant challenge arises when extrapolating sequences beyond the maximum allowable length. This is because the model's position embedding mechanisms are limited to positions encountered during training, thus preventing effective representation of positions in longer sequences. We analyzed conventional position encoding methods for long contexts and found the following characteristics. (1) When the representation dimension is regarded as the time axis, Rotary Position Embedding (RoPE) can be interpreted as a restricted wavelet transform using Haar-like wavelets. However, because it uses only a fixed scale parameter, it does not fully exploit the advantages of wavelet transforms, which capture the fine movements of non-stationary signals using multiple scales (window sizes). This limitation could explain why RoPE performs poorly in extrapolation. (2) Previous research as well as our own analysis indicates that Attention with Linear Biases (ALiBi) functions similarly to windowed attention, using windows of varying sizes. However, it has limitations in capturing deep dependencies because it restricts the receptive field of the model. From these insights, we propose a new position representation method that captures multiple scales (i.e., window sizes) by leveraging wavelet transforms without limiting the model's attention field. Experimental results show that this new method improves the performance of the model in both short and long contexts. In particular, our method allows extrapolation of position information without limiting the model's attention field.

We introduce STRING: Separable Translationally Invariant Position Encodings. STRING extends Rotary Position Encodings, a recently proposed and widely used algorithm in large language models, via a unifying theoretical framework. Importantly, STRING still provides exact translation invariance, including token coordinates of arbitrary dimensionality, whilst maintaining a low computational footprint. These properties are especially important in robotics, where efficient 3D token representation is key. We integrate STRING into Vision Transformers with RGB(-D) inputs (color plus optional depth), showing substantial gains, e.g. in open-vocabulary object detection and for robotics controllers. We complement our experiments with a rigorous mathematical analysis, proving the universality of our methods.

The mixing of two or more languages is called Code-Mixing (CM). CM is a social norm in multilingual societies. Neural Language Models (NLMs) like transformers have been effective on many NLP tasks. However, NLM for CM is an under-explored area. Though transformers are capable and powerful, they cannot always encode positional information since they are non-recurrent. Therefore, to enrich word information and incorporate positional information, positional encoding is defined. We hypothesize that Switching Points (SPs), i.e., junctions in the text where the language switches (L1 -> L2 or L2 -> L1), pose a challenge for CM Language Models (LMs), and hence give special emphasis to SPs in the modeling process. We experiment with several positional encoding mechanisms and show that rotatory positional encodings along with switching point information yield the best results. We introduce CONFLATOR: a neural language modeling approach for code-mixed languages. CONFLATOR tries to learn to emphasize switching points using smarter positional encoding, both at unigram and bigram levels. CONFLATOR outperforms the state-of-the-art on two tasks based on code-mixed Hindi and English (Hinglish): (i) sentiment analysis and (ii) machine translation.

We explore deep autoregressive Transformer models in language modeling for speech recognition. We focus on two aspects. First, we revisit Transformer model configurations specifically for language modeling. We show that well configured Transformer models outperform our baseline models based on the shallow stack of LSTM recurrent neural network layers. We carry out experiments on the open-source LibriSpeech 960hr task, for both 200K vocabulary word-level and 10K byte-pair encoding subword-level language modeling. We apply our word-level models to conventional hybrid speech recognition by lattice rescoring, and the subword-level models to attention based encoder-decoder models by shallow fusion. Second, we show that deep Transformer language models do not require positional encoding. The positional encoding is an essential augmentation for the self-attention mechanism which is invariant to sequence ordering. However, in autoregressive setup, as is the case for language modeling, the amount of information increases along the position dimension, which is a positional signal by its own. The analysis of attention weights shows that deep autoregressive self-attention models can automatically make use of such positional information. We find that removing the positional encoding even slightly improves the performance of these models.

Multi-layer perceptrons (MLP) have proven to be effective scene encoders when combined with higher-dimensional projections of the input, commonly referred to as positional encoding. However, scenes with a wide frequency spectrum remain a challenge: choosing high frequencies for positional encoding introduces noise in low structure areas, while low frequencies result in poor fitting of detailed regions. To address this, we propose a progressive positional encoding, exposing a hierarchical MLP structure to incremental sets of frequency encodings. Our model accurately reconstructs scenes with wide frequency bands and learns a scene representation at progressive level of detail without explicit per-level supervision. The architecture is modular: each level encodes a continuous implicit representation that can be leveraged separately for its respective resolution, meaning a smaller network for coarser reconstructions. Experiments on several 2D and 3D datasets show improvements in reconstruction accuracy, representational capacity and training speed compared to baselines.

Positional encoding is a vital component of Transformer architectures, enabling models to incorporate sequence order into self-attention mechanisms. Rotary Positional Embeddings (RoPE) have become a widely adopted solution due to their compatibility with relative position encoding and computational efficiency. However, RoPE relies on static, input-independent sinusoidal frequency patterns, limiting its ability to model context-sensitive relationships. In this work, we propose CARoPE (Context-Aware Rotary Positional Embedding), a novel generalization of RoPE that dynamically generates head-specific frequency patterns conditioned on token embeddings. This design introduces token- and context-sensitive positional representations while preserving RoPE efficiency and architectural simplicity. CARoPE computes input-dependent phase shifts using a bounded transformation of token embeddings and integrates them into the rotary mechanism across attention heads. We evaluate CARoPE on the FineWeb-Edu-10B dataset using GPT-2 variants trained on next-token prediction tasks. Experimental results show that CARoPE consistently outperforms RoPE and other common positional encoding baselines, achieving significantly lower perplexity, even at longer context lengths. Additionally, CARoPE enables faster training throughput without sacrificing model stability. These findings demonstrate that CARoPE offers a scalable, expressive, and efficient upgrade to existing positional encoding strategies in Transformer models.

Even for simple arithmetic tasks like integer addition, it is challenging for Transformers to generalize to longer sequences than those encountered during training. To tackle this problem, we propose position coupling, a simple yet effective method that directly embeds the structure of the tasks into the positional encoding of a (decoder-only) Transformer. Taking a departure from the vanilla absolute position mechanism assigning unique position IDs to each of the tokens, we assign the same position IDs to two or more "relevant" tokens; for integer addition tasks, we regard digits of the same significance as in the same position. On the empirical side, we show that with the proposed position coupling, our models trained on 1 to 30-digit additions can generalize up to 200-digit additions (6.67x of the trained length). On the theoretical side, we prove that a 1-layer Transformer with coupled positions can solve the addition task involving exponentially many digits, whereas any 1-layer Transformer without positional information cannot entirely solve it. We also demonstrate that position coupling can be applied to other algorithmic tasks such as Nx2 multiplication and a two-dimensional task.

Tables are ubiquitous across various domains for concisely representing structured information. Empowering large language models (LLMs) to reason over tabular data represents an actively explored direction. However, since typical LLMs only support one-dimensional~(1D) inputs, existing methods often flatten the two-dimensional~(2D) table structure into a sequence of tokens, which can severely disrupt the spatial relationships and result in an inevitable loss of vital contextual information. In this paper, we first empirically demonstrate the detrimental impact of such flattening operations on the performance of LLMs in capturing the spatial information of tables through two elaborate proxy tasks. Subsequently, we introduce a simple yet effective positional encoding method, termed ``2D-TPE'' (Two-Dimensional Table Positional Encoding), to address this challenge. 2D-TPE enables each attention head to dynamically select a permutation order of tokens within the context for attending to them, where each permutation represents a distinct traversal mode for the table, such as column-wise or row-wise traversal. 2D-TPE effectively mitigates the risk of losing essential spatial information while preserving computational efficiency, thus better preserving the table structure. Extensive experiments across five benchmarks demonstrate that 2D-TPE outperforms strong baselines, underscoring the importance of preserving the table structure for accurate table comprehension. Comprehensive analysis further reveals the substantially better scalability of 2D-TPE to large tables than baselines.

Current large vision-language models (VLMs) often encounter challenges such as insufficient capabilities of a single visual component and excessively long visual tokens. These issues can limit the model's effectiveness in accurately interpreting complex visual information and over-lengthy contextual information. Addressing these challenges is crucial for enhancing the performance and applicability of VLMs. This paper proposes the use of ensemble experts technique to synergizes the capabilities of individual visual encoders, including those skilled in image-text matching, OCR, image segmentation, etc. This technique introduces a fusion network to unify the processing of outputs from different visual experts, while bridging the gap between image encoders and pre-trained LLMs. In addition, we explore different positional encoding schemes to alleviate the waste of positional encoding caused by lengthy image feature sequences, effectively addressing the issue of position overflow and length limitations. For instance, in our implementation, this technique significantly reduces the positional occupancy in models like SAM, from a substantial 4096 to a more efficient and manageable 64 or even down to 1. Experimental results demonstrate that VLMs with multiple experts exhibit consistently superior performance over isolated visual encoders and mark a significant performance boost as more experts are integrated. We have open-sourced the training code used in this report. All of these resources can be found on our project website.

Vision-Language Models (VLMs) have shown promising capabilities in handling various multimodal tasks, yet they struggle in long-context scenarios, particularly in tasks involving videos, high-resolution images, or lengthy image-text documents. In our work, we first conduct an empirical analysis of the long-context capabilities of VLMs using our augmented long-context multimodal datasets. Our findings reveal that directly applying the positional encoding mechanism used for textual tokens to visual tokens is suboptimal, and VLM performance degrades sharply when the position encoding exceeds the model's context window. To address this, we propose Variable Visual Position Encoding (V2PE), a novel positional encoding approach that employs variable and smaller increments for visual tokens, enabling more efficient management of long multimodal sequences. Our experiments demonstrate the effectiveness of V2PE to enhances VLMs' ability to effectively understand and reason over long multimodal contexts. We further integrate V2PE with our augmented long-context multimodal datasets to fine-tune the open-source VLM, InternVL2. The fine-tuned model achieves strong performance on both standard and long-context multimodal tasks. Notably, when the sequence length of the training dataset is increased to 256K tokens, the model is capable of processing multimodal sequences up to 1M tokens, highlighting its potential for real-world long-context applications.

Rotary Positional Encoding (RoPE) is widely used in modern large language models. However, when sequences are extended beyond the range seen during training, rotary phases can enter out-of-distribution regimes, leading to spurious long-range alignments, diffuse attention, and degraded retrieval. Existing remedies only partially address these failures, as they often trade local positional resolution for long-context stability. We propose GAPE (Gated Adaptive Positional Encoding), a drop-in augmentation for positional encodings that introduces a content-aware bias directly into the attention logits while preserving the rotary geometry. GAPE decouples distance-based suppression from token importance through a query-dependent gate that contracts irrelevant context and a key-dependent gate that preserves salient distant tokens. We prove that protected tokens remain accessible, while the attention mass assigned to unprotected distant tokens decays as a function of the query gate. We further show that GAPE can be implemented within standard scaled dot-product attention. We validate these properties empirically, finding that GAPE consistently yields sharper attention and improved long-context robustness over rotary baselines across both synthetic retrieval and long-context benchmarks.

Transformers with causal attention can solve tasks that require positional information without using positional encodings. In this work, we propose and investigate a new hypothesis about how positional information can be stored without using explicit positional encoding. We observe that nearby embeddings are more similar to each other than faraway embeddings, allowing the transformer to potentially reconstruct the positions of tokens. We show that this pattern can occur in both the trained and the randomly initialized Transformer models with causal attention and no positional encodings over a common range of hyperparameters.

The ability to process ultra-long contexts is crucial for large language models (LLMs) to perform long-horizon tasks. While recent efforts have extended context windows to 1M and beyond, model performance degrades when sequence length exceeds the pre-trained range of positional encodings (e.g., RoPE), i.e., position exhaustion. This fundamental limitation must be overcome to achieve a truly infinite context. To address it, we propose Periodic RoPE (P-RoPE), a positional encoding mechanism designed to circumvent this exhaustion. It operates in conjunction with sliding window attention (SWA) to capture local dependencies and relative positions within each window. This local layer is then complemented by a global attention layer with No Positional Encoding (NoPE), enabling unbounded interaction across the entire sequence without positional constraints. By stacking these two types of layers, the model avoids the need for positional extrapolation to generalize longer and theoretically supports an infinite context window. Empirical results show that our model, MiniWin, outperforms MiniMInd with standard GPT architectures in long-context efficiency and stability. Our work provides a possible pathway toward LLMs with genuine infinite-context understanding. The code is available at https://github.com/Cominder/miniwin{https://github.com/Cominder/miniwin}.

Transformer-based language models rely on positional encoding (PE) to handle token order and support context length extrapolation. However, existing PE methods lack theoretical clarity and rely on limited evaluation metrics to substantiate their extrapolation claims. We propose the Bayesian Attention Mechanism (BAM), a theoretical framework that formulates positional encoding as a prior within a probabilistic model. BAM unifies existing methods (e.g., NoPE and ALiBi) and motivates a new Generalized Gaussian positional prior that substantially improves long-context generalization. Empirically, BAM enables accurate information retrieval at 500times the training context length, outperforming previous state-of-the-art context length generalization in long context retrieval accuracy while maintaining comparable perplexity and introducing minimal additional parameters.

Length generalization, the ability to generalize from small training context sizes to larger ones, is a critical challenge in the development of Transformer-based language models. Positional encoding (PE) has been identified as a major factor influencing length generalization, but the exact impact of different PE schemes on extrapolation in downstream tasks remains unclear. In this paper, we conduct a systematic empirical study comparing the length generalization performance of decoder-only Transformers with five different position encoding approaches including Absolute Position Embedding (APE), T5's Relative PE, ALiBi, and Rotary, in addition to Transformers without positional encoding (NoPE). Our evaluation encompasses a battery of reasoning and mathematical tasks. Our findings reveal that the most commonly used positional encoding methods, such as ALiBi, Rotary, and APE, are not well suited for length generalization in downstream tasks. More importantly, NoPE outperforms other explicit positional encoding methods while requiring no additional computation. We theoretically demonstrate that NoPE can represent both absolute and relative PEs, but when trained with SGD, it mostly resembles T5's relative PE attention patterns. Finally, we find that scratchpad is not always helpful to solve length generalization and its format highly impacts the model's performance. Overall, our work suggests that explicit position embeddings are not essential for decoder-only Transformers to generalize well to longer sequences.

The human brain processes dynamic visual input through hierarchically organized, functionally specialized regions. While recent in silico brain encoding models can synthesize optimal stimuli to probe selectivity in different brain regions, prior work has been largely limited to static images, leaving dynamic visual processing underexplored. We introduce a novel neural-guided video synthesis framework that generates stimuli optimized for target brain regions across visual cortex. Our method performs evolutionary search over a structured prompt space, guided by a dynamic encoding model that predicts voxel-level responses to video inputs. By maximizing predicted activity for a target ROI, the framework efficiently discovers hyper-activating dynamic stimuli that consistently surpass handcrafted localizer videos. The synthesized videos recover known selectivities across ventral, dorsal, and lateral pathways, and further reveal systematic differences in sensitivity to temporal dynamics. A searchlight analysis provides new insight into the progression toward increasingly complex social-dynamic features along the lateral stream, further supported by probing with synthesized abstract, non-naturalistic stimuli. Taken together, our framework enables in silico exploration of dynamic visual selectivity, with new predictions for in vivo experiments

Length extrapolation algorithms based on Rotary position embedding (RoPE) have shown promising results in extending the context length of language models. However, understanding how position embedding can capture longer-range contextual information remains elusive. Based on the intuition that different dimensions correspond to different frequency of changes in RoPE encoding, we conducted a dimension-level analysis to investigate the correlation between a hidden dimension of an attention head and its contribution to capturing long-distance dependencies. Using our correlation metric, we identified a particular type of attention heads, which we named Positional Heads, from various length-extrapolated models. These heads exhibit a strong focus on long-range information interaction and play a pivotal role in long input processing, as evidence by our ablation. We further demonstrate the correlation between the efficiency of length extrapolation and the extension of the high-dimensional attention allocation of these heads. The identification of Positional Heads provides insights for future research in long-text comprehension.

The Transformer architecture has revolutionized various regions since it was proposed, and its effectiveness largely depends on the ability to encode positional information. Traditional position encoding methods exhibit significant limitations due to lack of robustness and flexibility of position. Therefore, Rotary Positional Encoding (RoPE) was proposed to alleviate these issues, which integrates positional information by rotating the embeddings in the attention mechanism. However, RoPE requires manually defined rotation matrices with limited transformation space, constraining the model's capacity. In this work, we propose ComRoPE, which generalizes RoPE by defining it in terms of trainable commuting angle matrices. Specifically, we demonstrate that pairwise commutativity of these matrices is essential for RoPE to achieve scalability and positional robustness. We formally define the RoPE Equation, which is an essential condition that ensures consistent performance with position offsets. Based on the theoretical analysis, we present two types of trainable commuting angle matrices as sufficient solutions to the RoPE equation, which significantly improve performance, surpassing the current state-of-the-art method by 1.6% at training resolution and 2.9% at higher resolution on the ImageNet-1K dataset. Furthermore, our framework shows versatility in generalizing to existing RoPE formulations and offering new insights for future positional encoding research. To ensure reproducibility, the source code and instructions are available at https://github.com/Longin-Yu/ComRoPE

Standard positional encodings represent position as a one-dimensional reading-order coordinate, but reading order alone does not determine hierarchical textual structure. We use a hierarchical rotary positional encoding (hRoPE) that represents paragraph, sentence, and token indices as separate channels, hold the token sequence fixed, intervene on the paragraph coordinate p1, and measure cross-paragraph attention with a token-distance-exact estimator. Attention is compressed relative to a token-distance-matched baseline in every corpus, but compression alone is not diagnostic of true structure: an architecturally identical channel with density-matched random labels is compressed too, more shallowly. What distinguishes real structure is the depth of compression, which is greater and corpus-dependent while the control's is not. Comparing eight corpus-only quantities across three constructs (lexical persistence, paragraph length, embedding-based coherence), none fully reproduces the cross-corpus ordering of depth, though embedding-based coherence comes closest. Compression depth, not its location, is the reproducible signature of genuine paragraph structure in our setting.

We present a VAE architecture for encoding and generating high dimensional sequential data, such as video or audio. Our deep generative model learns a latent representation of the data which is split into a static and dynamic part, allowing us to approximately disentangle latent time-dependent features (dynamics) from features which are preserved over time (content). This architecture gives us partial control over generating content and dynamics by conditioning on either one of these sets of features. In our experiments on artificially generated cartoon video clips and voice recordings, we show that we can convert the content of a given sequence into another one by such content swapping. For audio, this allows us to convert a male speaker into a female speaker and vice versa, while for video we can separately manipulate shapes and dynamics. Furthermore, we give empirical evidence for the hypothesis that stochastic RNNs as latent state models are more efficient at compressing and generating long sequences than deterministic ones, which may be relevant for applications in video compression.

As transformers are equivariant to the permutation of input tokens, encoding the positional information of tokens is necessary for many tasks. However, since existing positional encoding schemes have been initially designed for NLP tasks, their suitability for vision tasks, which typically exhibit different structural properties in their data, is questionable. We argue that existing positional encoding schemes are suboptimal for 3D vision tasks, as they do not respect their underlying 3D geometric structure. Based on this hypothesis, we propose a geometry-aware attention mechanism that encodes the geometric structure of tokens as relative transformation determined by the geometric relationship between queries and key-value pairs. By evaluating on multiple novel view synthesis (NVS) datasets in the sparse wide-baseline multi-view setting, we show that our attention, called Geometric Transform Attention (GTA), improves learning efficiency and performance of state-of-the-art transformer-based NVS models without any additional learned parameters and only minor computational overhead.

Rotary Position Embedding (RoPE) has shown strong performance in text-based Large Language Models (LLMs), but extending it to video remains a challenge due to the intricate spatiotemporal structure of video frames. Existing adaptations, such as RoPE-3D, attempt to encode spatial and temporal dimensions separately but suffer from two major limitations: positional bias in attention distribution and disruptions in video-text transitions. To overcome these issues, we propose Video Rotary Position Embedding (VRoPE), a novel positional encoding method tailored for Video-LLMs. Our approach restructures positional indices to preserve spatial coherence and ensure a smooth transition between video and text tokens. Additionally, we introduce a more balanced encoding strategy that mitigates attention biases, ensuring a more uniform distribution of spatial focus. Extensive experiments on Vicuna and Qwen2 across different model scales demonstrate that VRoPE consistently outperforms previous RoPE variants, achieving significant improvements in video understanding, temporal reasoning, and retrieval tasks. Code will be available at https://github.com/johncaged/VRoPE

Transformers, central to the successes in modern Natural Language Processing, often falter on arithmetic tasks despite their vast capabilities --which paradoxically include remarkable coding abilities. We observe that a crucial challenge is their naive reliance on positional information to solve arithmetic problems with a small number of digits, leading to poor performance on larger numbers. Herein, we delve deeper into the role of positional encoding, and propose several ways to fix the issue, either by modifying the positional encoding directly, or by modifying the representation of the arithmetic task to leverage standard positional encoding differently. We investigate the value of these modifications for three tasks: (i) classical multiplication, (ii) length extrapolation in addition, and (iii) addition in natural language context. For (i) we train a small model on a small dataset (100M parameters and 300k samples) with remarkable aptitude in (direct, no scratchpad) 15 digits multiplication and essentially perfect up to 12 digits, while usual training in this context would give a model failing at 4 digits multiplication. In the experiments on addition, we use a mere 120k samples to demonstrate: for (ii) extrapolation from 10 digits to testing on 12 digits numbers while usual training would have no extrapolation, and for (iii) almost perfect accuracy up to 5 digits while usual training would be correct only up to 3 digits (which is essentially memorization with a training set of 120k samples).

Understanding spatial location and relationships is a fundamental capability for modern artificial intelligence systems. Insights from human spatial cognition provide valuable guidance in this domain. Neuroscientific discoveries have highlighted the role of grid cells as a fundamental neural component for spatial representation, including distance computation, path integration, and scale discernment. In this paper, we introduce a novel positional encoding scheme inspired by Fourier analysis and the latest findings in computational neuroscience regarding grid cells. Assuming that grid cells encode spatial position through a summation of Fourier basis functions, we demonstrate the translational invariance of the grid representation during inner product calculations. Additionally, we derive an optimal grid scale ratio for multi-dimensional Euclidean spaces based on principles of biological efficiency. Utilizing these computational principles, we have developed a Grid-cell inspired Positional Encoding technique, termed GridPE, for encoding locations within high-dimensional spaces. We integrated GridPE into the Pyramid Vision Transformer architecture. Our theoretical analysis shows that GridPE provides a unifying framework for positional encoding in arbitrary high-dimensional spaces. Experimental results demonstrate that GridPE significantly enhances the performance of transformers, underscoring the importance of incorporating neuroscientific insights into the design of artificial intelligence systems.

Positional encodings are essential to transformer-based generative models, yet their behavior in multimodal and attention-sharing settings is not fully understood. In this work, we present a principled analysis of Rotary Positional Embeddings (RoPE), showing that RoPE naturally decomposes into frequency components with distinct positional sensitivities. We demonstrate that this frequency structure explains why shared-attention mechanisms, where a target image is generated while attending to tokens from a reference image, can lead to reference copying, in which the model reproduces content from the reference instead of extracting only its stylistic cues. Our analysis reveals that the high-frequency components of RoPE dominate the attention computation, forcing queries to attend mainly to spatially aligned reference tokens and thereby inducing this unintended copying behavior. Building on these insights, we introduce a method for selectively modulating RoPE frequency bands so that attention reflects semantic similarity rather than strict positional alignment. Applied to modern transformer-based diffusion architectures, where all tokens share attention, this modulation restores stable and meaningful shared attention. As a result, it enables effective control over the degree of style transfer versus content copying, yielding a proper style-aligned generation process in which stylistic attributes are transferred without duplicating reference content.

Multimodal position encoding is essential for vision-language models, yet there has been little systematic investigation into multimodal position encoding. We conduct a comprehensive analysis of multimodal Rotary Positional Embedding (RoPE) by examining its two core components: position design and frequency allocation. Through extensive experiments, we identify three key guidelines: positional coherence, full frequency utilization, and preservation of textual priors-ensuring unambiguous layout, rich representation, and faithful transfer from the pre-trained LLM. Based on these insights, we propose Multi-Head RoPE (MHRoPE) and MRoPE-Interleave (MRoPE-I), two simple and plug-and-play variants that require no architectural changes. Our methods consistently outperform existing approaches across diverse benchmarks, with significant improvements in both general and fine-grained multimodal understanding. Code will be avaliable at https://github.com/JJJYmmm/Multimodal-RoPEs.

There is a growing interest in the ability of neural networks to execute algorithmic tasks (e.g., arithmetic, summary statistics, and sorting). The goal of this work is to better understand the role of attention in Transformers for algorithmic execution. Its importance for algorithmic execution has been studied theoretically and empirically using parallel computational models. Notably, many parallel algorithms communicate between processors solely using positional information. Inspired by this observation, we investigate how Transformers can execute algorithms using positional attention, where attention weights depend exclusively on positional encodings. We prove that Transformers with positional attention (positional Transformers) maintain the same expressivity of parallel computational models, incurring a logarithmic depth cost relative to the input length. We analyze their in-distribution learnability and explore how parameter norms in positional attention affect sample complexity. Our results show that positional Transformers introduce a learning trade-off: while they exhibit better theoretical dependence on parameter norms, certain tasks may require more layers, which can, in turn, increase sample complexity. Finally, we empirically explore the out-of-distribution performance of positional Transformers and find that they perform well in tasks where their underlying algorithmic solution relies on positional information.

Recent advances in large language models (LLMs) have enhanced their ability to process long input contexts. This development is particularly crucial for tasks that involve retrieving knowledge from an external datastore, which can result in long inputs. However, recent studies show a positional bias in LLMs, demonstrating varying performance depending on the location of useful information within the input sequence. In this study, we conduct extensive experiments to investigate the root causes of positional bias. Our findings indicate that the primary contributor to LLM positional bias stems from the inherent positional preferences of different models. We demonstrate that merely employing prompt-based solutions is inadequate for overcoming the positional preferences. To address this positional bias issue of a pre-trained LLM, we developed a Position-Aware Parameter Efficient Fine-Tuning (PAPEFT) approach which is composed of a data augmentation technique and a parameter efficient adapter, enhancing a uniform attention distribution across the input context. Our experiments demonstrate that the proposed approach effectively reduces positional bias, improving LLMs' effectiveness in handling long context sequences for various tasks that require externally retrieved knowledge.

Preventing the performance decay of Transformers on inputs longer than those used for training has been an important challenge in extending the context length of these models. Though the Transformer architecture has fundamentally no limits on the input sequence lengths it can process, the choice of position encoding used during training can limit the performance of these models on longer inputs. We propose a novel functional relative position encoding with progressive interpolation, FIRE, to improve Transformer generalization to longer contexts. We theoretically prove that this can represent some of the popular relative position encodings, such as T5's RPE, Alibi, and Kerple. We next empirically show that FIRE models have better generalization to longer contexts on both zero-shot language modeling and long text benchmarks.

The article explores an encoding and structural information processing approach using sparse bit vectors and fixed-length linear vectors. The following are presented: a discrete method of speculative stochastic dimensionality reduction of multidimensional code and linear spaces with linear asymptotic complexity; a geometric method for obtaining discrete embeddings of an organised code space that reflect the internal structure of a given modality. The structure and properties of a code space are investigated using three modalities as examples: morphology of Russian and English languages, and immunohistochemical markers. Parallels are drawn between the resulting map of the code space layout and so-called pinwheels appearing on the mammalian neocortex. A cautious assumption is made about similarities between neocortex organisation and processes happening in our models.

We prove under practical assumptions that Rotary Positional Embedding (RoPE) introduces an intrinsic distance-dependent bias in attention scores that limits RoPE's ability to model long-context. RoPE extension methods may alleviate this issue, but they typically require post-hoc adjustments after pretraining, such as rescaling or hyperparameters retuning. This paper introduces Token-Aware Phase Attention (TAPA), a new positional encoding method that incorporates a learnable phase function into the attention mechanism. TAPA preserves token interactions over long range, extends to longer contexts with direct and light fine-tuning, extrapolates to unseen lengths, and attains significantly lower perplexity on long-context than RoPE families.

Many-Shot In-Context Learning (ICL) has emerged as a promising paradigm, leveraging extensive examples to unlock the reasoning potential of Large Language Models (LLMs). However, existing methods typically rely on a predetermined, fixed number of shots. This static approach often fails to adapt to the varying difficulty of different queries, leading to either insufficient context or interference from noise. Furthermore, the prohibitive computational and memory costs of long contexts severely limit Many-Shot's feasibility. To address the above limitations, we propose AdapShot, which dynamically optimizes shot counts and leverages KV cache reuse for efficient inference. Specifically, we design a probe-based evaluation mechanism that utilizes output entropy to determine the optimal number of shots. To bypass the redundant prefilling computation during both the probing and inference phases, we incorporate a semantics-aware KV cache reuse strategy. Within this reuse strategy, to address positional encoding incompatibilities, we introduce a decoupling and re-encoding method that enables the flexible reordering of cached key-value pairs. Extensive experiments demonstrate that AdapShot achieves an average performance gain of around 10% and a 4.64x speedup compared to state-of-the-art DBSA.

We present a novel neural network for processing sequences. The ByteNet is a one-dimensional convolutional neural network that is composed of two parts, one to encode the source sequence and the other to decode the target sequence. The two network parts are connected by stacking the decoder on top of the encoder and preserving the temporal resolution of the sequences. To address the differing lengths of the source and the target, we introduce an efficient mechanism by which the decoder is dynamically unfolded over the representation of the encoder. The ByteNet uses dilation in the convolutional layers to increase its receptive field. The resulting network has two core properties: it runs in time that is linear in the length of the sequences and it sidesteps the need for excessive memorization. The ByteNet decoder attains state-of-the-art performance on character-level language modelling and outperforms the previous best results obtained with recurrent networks. The ByteNet also achieves state-of-the-art performance on character-to-character machine translation on the English-to-German WMT translation task, surpassing comparable neural translation models that are based on recurrent networks with attentional pooling and run in quadratic time. We find that the latent alignment structure contained in the representations reflects the expected alignment between the tokens.

Rotary Position Embedding (RoPE) in Transformer models has inherent limits that weaken length extrapolation. We reinterpret the attention map with positional encoding as a noisy feature map, and propose Denoising Positional Encoding (DoPE), a training-free method based on truncated matrix entropy to detect outlier frequency bands in the feature map. Leveraging the noise characteristics of the feature map, we further reparameterize it with a parameter-free Gaussian distribution to achieve robust extrapolation. Our method theoretically reveals the underlying cause of the attention sink phenomenon and its connection to truncated matrix entropy. Experiments on needle-in-a-haystack and many-shot in-context learning tasks demonstrate that DoPE significantly improves retrieval accuracy and reasoning stability across extended contexts (up to 64K tokens). The results show that the denoising strategy for positional embeddings effectively mitigates attention sinks and restores balanced attention patterns, providing a simple yet powerful solution for improving length generalization. Our project page is Project: https://The-physical-picture-of-LLMs.github.io

Despite the remarkable capabilities of Multimodal Large Language Models (MLLMs), they still suffer from visual fading in long-context scenarios. Specifically, the attention to visual tokens diminishes as the text sequence lengthens, leading to text generation detached from visual constraints. We attribute this degradation to the inherent inductive bias of Multimodal RoPE, which penalizes inter-modal attention as the distance between visual and text tokens increases. To address this, we propose inter-modal Distance Invariant Position Encoding (DIPE), a simple but effective mechanism that disentangles position encoding based on modality interactions. DIPE retains the natural relative positioning for intra-modal interactions to preserve local structure, while enforcing an anchored perceptual proximity for inter-modal interactions. This strategy effectively mitigates the inter-modal distance-based penalty, ensuring that visual signals remain perceptually consistent regardless of the context length. Experimental results demonstrate that by integrating DIPE with Multimodal RoPE, the model maintains stable visual grounding in long-context scenarios, significantly alleviating visual fading while preserving performance on standard short-context benchmarks. Code is available at https://github.com/lchen1019/DIPE.

We present a neural network architecture designed to naturally learn a positional embedding and overcome the spectral bias towards lower frequencies faced by conventional implicit neural representation networks. Our proposed architecture, SPDER, is a simple MLP that uses an activation function composed of a sinusoidal multiplied by a sublinear function, called the damping function. The sinusoidal enables the network to automatically learn the positional embedding of an input coordinate while the damping passes on the actual coordinate value by preventing it from being projected down to within a finite range of values. Our results indicate that SPDERs speed up training by 10x and converge to losses 1,500-50,000x lower than that of the state-of-the-art for image representation. SPDER is also state-of-the-art in audio representation. The superior representation capability allows SPDER to also excel on multiple downstream tasks such as image super-resolution and video frame interpolation. We provide intuition as to why SPDER significantly improves fitting compared to that of other INR methods while requiring no hyperparameter tuning or preprocessing.

Recent proprietary models such as Sora2 demonstrate promising progress in generating multi-shot videos conditioned on multiple reference characters. However, academic research on this problem remains limited. We study this task and identify a core challenge: when reference images exhibit highly similar appearances, the model often suffers from reference confusion, where semantically similar tokens degrade the model's ability to retrieve the correct context. To address this, we introduce PoCo (Position Embedding as a Context Controller), which incorporates position encoding as additional context control beyond semantic retrieval. By employing side information of tokens, PoCo enables precise token-level matching while preserving implicit semantic consistency modeling. Building on PoCo, we develop a multi-reference and multi-shot video generation model capable of reliably controlling characters with extremely similar visual traits. Extensive experiments demonstrate that PoCo improves cross-shot consistency and reference fidelity compared with various baselines.

In recent years, huge progress has been made on learning neural implicit representations from multi-view images for 3D reconstruction. As an additional input complementing coordinates, using sinusoidal functions as positional encodings plays a key role in revealing high frequency details with coordinate-based neural networks. However, high frequency positional encodings make the optimization unstable, which results in noisy reconstructions and artifacts in empty space. To resolve this issue in a general sense, we introduce to learn neural implicit representations with quantized coordinates, which reduces the uncertainty and ambiguity in the field during optimization. Instead of continuous coordinates, we discretize continuous coordinates into discrete coordinates using nearest interpolation among quantized coordinates which are obtained by discretizing the field in an extremely high resolution. We use discrete coordinates and their positional encodings to learn implicit functions through volume rendering. This significantly reduces the variations in the sample space, and triggers more multi-view consistency constraints on intersections of rays from different views, which enables to infer implicit function in a more effective way. Our quantized coordinates do not bring any computational burden, and can seamlessly work upon the latest methods. Our evaluations under the widely used benchmarks show our superiority over the state-of-the-art. Our code is available at https://github.com/MachinePerceptionLab/CQ-NIR.

Brain-to-image decoding has been recently propelled by the progress in generative AI models and the availability of large ultra-high field functional Magnetic Resonance Imaging (fMRI). However, current approaches depend on complicated multi-stage pipelines and preprocessing steps that typically collapse the temporal dimension of brain recordings, thereby limiting time-resolved brain decoders. Here, we introduce Dynadiff (Dynamic Neural Activity Diffusion for Image Reconstruction), a new single-stage diffusion model designed for reconstructing images from dynamically evolving fMRI recordings. Our approach offers three main contributions. First, Dynadiff simplifies training as compared to existing approaches. Second, our model outperforms state-of-the-art models on time-resolved fMRI signals, especially on high-level semantic image reconstruction metrics, while remaining competitive on preprocessed fMRI data that collapse time. Third, this approach allows a precise characterization of the evolution of image representations in brain activity. Overall, this work lays the foundation for time-resolved brain-to-image decoding.

Rotary positional embeddings (RoPE) are widely used in large language models to encode token positions through multiplicative rotations, yet their behavior at long context lengths remains poorly characterized. In this work, we reinterpret RoPE as phase modulation applied to a bank of complex oscillators, enabling analysis through classical signal processing theory. Under this formulation, we derive principled lower bounds on the RoPE base parameter that are necessary to preserve positional coherence over a target context length. These include a fundamental aliasing bound, analogous to a Nyquist limit, and a DC-component stability bound that constrains phase drift in low-frequency positional modes. We further extend this analysis to deep transformers, showing that repeated rotary modulation across layers compounds angular misalignment, tightening the base requirement as depth increases. Complementing these results, we derive a precision-dependent upper bound on the RoPE base arising from finite floating-point resolution. Beyond this limit, incremental phase updates become numerically indistinguishable, leading to positional erasure even in the absence of aliasing. Together, the lower and upper bounds define a precision- and depth-dependent feasibility region a Goldilocks zone for long-context transformers. We validate the framework through a comprehensive case study of state-of-the-art models, including LLaMA, Mistral, and DeepSeek variants, showing that observed successes, failures, and community retrofits align closely with the predicted bounds. Notably, models that violate the stability bound exhibit attention collapse and long-range degradation, while attempts to scale beyond one million tokens encounter a hard precision wall independent of architecture or training.

State Space Models (SSMs) offer an efficient alternative to Transformers for sequence modeling, yet conditioning pre-trained SSMs for iterative generation typically operates outside the recurrent operator, through input injection or activation modulation. While such mechanisms expose the model to conditioning information, they leave the underlying temporal dynamics fixed. We introduce MaRK (Markov-adapted Recurrent Kernels), a dynamic operator-conditioning framework that maps context vectors directly into bounded modulations of a frozen SSM's recurrence (A), read-in (B), read-out (C), skip (D), and discretization (Δ) parameters. Viewed through the lens of LPV-SSM systems, MaRK induces a context-indexed family of Markov parameter sequences, allowing each diffusion timestep to reshape the model's input-output memory kernel. We instantiate MaRK on a frozen 111M-parameter Hydra SSM backbone and study three adapter geometries: Hypernet, Chebyshev polynomial, and Discrete Cosine Transform kernels. Since these adapters modify the Markov parameter sequence through low-rank auxiliary maps on the frozen backbone, parameter-efficient fine-tuning arises as a structural consequence of the adaptation mechanism itself, requiring only 6.3--11M trainable auxiliary parameters to transition from a bidirectional objective to an iterative diffusion regime. The bounded recurrence parameterization further yields an analytic Affine Quadratic Stability certificate for the modulated recurrence. Through synthetic LPV recovery experiments and Markov-operator diagnostics, we show that MaRK recovers coordinate-invariant temporal operators under matched assumptions and produces distinct, stable timestep-conditioned memory profiles. Empirically, the Chebyshev variant yields the strongest performance, achieving an average validation loss of 2.55, followed by the DCT (2.59) and Hypernet (3.77) geometries.

Encoder-decoder models have become an effective approach for sequence learning tasks like machine translation, image captioning and speech recognition, but have yet to show competitive results for handwritten text recognition. To this end, we propose an attention-based sequence-to-sequence model. It combines a convolutional neural network as a generic feature extractor with a recurrent neural network to encode both the visual information, as well as the temporal context between characters in the input image, and uses a separate recurrent neural network to decode the actual character sequence. We make experimental comparisons between various attention mechanisms and positional encodings, in order to find an appropriate alignment between the input and output sequence. The model can be trained end-to-end and the optional integration of a hybrid loss allows the encoder to retain an interpretable and usable output, if desired. We achieve competitive results on the IAM and ICFHR2016 READ data sets compared to the state-of-the-art without the use of a language model, and we significantly improve over any recent sequence-to-sequence approaches.

Transformer architectures rely on position encodings to model the spatial structure of input data. Rotary Position Encoding (RoPE) is a widely used method in language models that encodes relative positions through fixed, block-diagonal, rotation matrices applied to key-query interactions. We hypothesize that this inductive bias limits their RoPE's effectiveness for modalities with high dimensional structure. Lie Relative Encodings (LieRE) introduce a principled generalization of RoPE, aimed at increasing the representational capacity of positional encodings in transformers. Instead of fixed 2D rotations, LieRE learns dense skew-symmetric matrices (Lie algebra elements), which are then differentiable mapped to form high-dimensional rotation matrices (Lie group elements). This results in richer, learnable, and continuous, encodings of both relative and absolute positional information. We demonstrate the effectiveness of LieRE on 2D and 3D vision tasks, showing that it generalizes well to higher input resolutions while maintaining computational efficiency. The code and checkpoints are publicly available at https://github.com/StanfordMIMI/LieRE.

Transformers' ability to generalize to longer sequences than they have been trained on, known as length extrapolation, degrades as sequence length increases. Most of Relative Positional Encoding (RPE) methods address this problem by either adding constant linear biases or learning general biases, lacking the ability to specialize for different sequences. In this work, inspired by ALiBi, we propose Context-aware Biases for Length Extrapolation (Cable), that learns token-specific biases for each head in decoder-based transformers. Cable learns adaptive, context-aware biases, overcoming the limitations of fixed patterns by adding dynamic biases specific to each token in the sequence. Results show that when tested on a sequence length of 1024, a GPT-3 Medium (334M parameters) with our positional encoding, trained on a sequence length of 512, achieves better perplexity (-0.65) than a similar network with sinusoidal positional encoding trained on a sequence length of 1024. This is achieved with 48% lower memory usage, and only 3.5% higher training time. Furthermore, our method notably improves the extrapolation ability of existing RPE methods on the Edu-FineWeb10B and WikiText-103 datasets. Code is available at: https://github.com/axiomlab/Cable

Linear Recurrence has proven to be a powerful tool for modeling long sequences efficiently. In this work, we show that existing models fail to take full advantage of its potential. Motivated by this finding, we develop GateLoop, a foundational sequence model that generalizes linear recurrent models such as S4, S5, LRU and RetNet, by employing data-controlled state transitions. Utilizing this theoretical advance, GateLoop empirically outperforms existing models for auto-regressive language modeling. Our method comes with a low-cost O(l) recurrent mode and an efficient O(l log_{2} l) parallel mode making use of highly optimized associative scan implementations. Furthermore, we derive an O(l^2) surrogate attention mode, revealing remarkable implications for Transformer and recently proposed architectures. Specifically, we prove that our approach can be interpreted as providing data-controlled relative-positional information to Attention. While many existing models solely rely on data-controlled cumulative sums for context aggregation, our findings suggest that incorporating data-controlled complex cumulative products may be a crucial step towards more powerful sequence models.

We present GRAPE (Group RepresentAtional Position Encoding), a unified framework for positional encoding based on group actions. GRAPE brings together two families of mechanisms: (i) multiplicative rotations (Multiplicative GRAPE) in SO(d) and (ii) additive logit biases (Additive GRAPE) arising from unipotent actions in the general linear group GL. In Multiplicative GRAPE, a position n in Z (or t in R) acts as G(n)=exp(n,ω,L) with a rank-2 skew generator L in R^{d times d}, yielding a relative, compositional, norm-preserving map with a closed-form matrix exponential. RoPE is recovered exactly when the d/2 planes are the canonical coordinate pairs with log-uniform spectrum. Learned commuting subspaces and compact non-commuting mixtures strictly extend this geometry to capture cross-subspace feature coupling at O(d) and O(r d) cost per head, respectively. In Additive GRAPE, additive logits arise as rank-1 (or low-rank) unipotent actions, recovering ALiBi and the Forgetting Transformer (FoX) as exact special cases while preserving an exact relative law and streaming cacheability. Altogether, GRAPE supplies a principled design space for positional geometry in long-context models, subsuming RoPE and ALiBi as special cases. Project Page: https://github.com/model-architectures/GRAPE.

While large language models (LLMs) can solve advanced reasoning problems in seconds, we show that even frontier models fail to perform a much simpler operation: exactly copying an input string that lies well within their context windows. We attribute this failure to positional encodings in Transformer architectures, whose inductive bias favors copying through a shortcut based on matching local contexts rather than carefully locating the corresponding input positions. To address this issue, we introduce 2D-RoPE, which organizes text into a 2D grid rather than a 1D sequence and assigns each token a row ID and a column ID. Under this view, copying becomes simply retrieving input tokens at a fixed column offset, which makes the task easy to learn. In synthetic copy experiments, shallow Transformers with 2D-RoPE achieve perfect copying at input lengths hundreds of times longer than those seen during training, whereas standard positional encodings fall far behind. We further show that the advantage of 2D-RoPE language models on copy tasks consistently holds in large-scale pretraining on DCLM with model sizes up to 1.4B parameters. Overall, our results suggest that viewing text in 2D can benefit language modeling, and we hope this encourages future work to further explore the potential of 2D positional encodings.

Existing research largely attributes the global sequence modeling capability of Transformers to the explicit computation of attention weights, a process that inherently incurs quadratic computational complexity. In this work, we offer a novel perspective: we demonstrate that attention can be mathematically reframed as a Multi-Layer Perceptron (MLP) equipped with dynamically predicted parameters. Through this lens, we explain attention's global modeling power not as explicit token-wise aggregation, but as an implicit process where dynamically generated parameters act as a compressed representation of the global context. Inspired by this insight, we investigate a fundamental question: can we achieve Transformer-level sequence global modeling entirely through dynamic parameterization while maintaining linear complexity, effectively replacing explicit attention? To explore this, we design various dynamic parameter prediction strategies and integrate them into standard network layers. Extensive empirical studies on vision models demonstrate that dynamic parameterization can indeed serve as a highly effective, linear-complexity alternative to explicit attention, opening new pathways for efficient sequence modeling. Code is available at https://github.com/LeapLabTHU/WeightFormer.

Transformer architectures rely on explicit position encodings in order to preserve a notion of word order. In this paper, we argue that existing work does not fully utilize position information. For example, the initial proposal of a sinusoid embedding is fixed and not learnable. In this paper, we first review absolute position embeddings and existing methods for relative position embeddings. We then propose new techniques that encourage increased interaction between query, key and relative position embeddings in the self-attention mechanism. Our most promising approach is a generalization of the absolute position embedding, improving results on SQuAD1.1 compared to previous position embeddings approaches. In addition, we address the inductive property of whether a position embedding can be robust enough to handle long sequences. We demonstrate empirically that our relative position embedding method is reasonably generalized and robust from the inductive perspective. Finally, we show that our proposed method can be adopted as a near drop-in replacement for improving the accuracy of large models with a small computational budget.

Sampling low-energy molecular conformations, spatial arrangements of atoms in a molecule, is a critical task for many different calculations performed in the drug discovery and optimization process. Numerous specialized equivariant networks have been designed to generate molecular conformations from 2D molecular graphs. Recently, non-equivariant transformer models have emerged as a viable alternative due to their capability to scale to improve generalization. However, the concern has been that non-equivariant models require a large model size to compensate the lack of equivariant bias. In this paper, we demonstrate that a well-chosen positional encoding effectively addresses these size limitations. A standard transformer model incorporating relative positional encoding for molecular graphs when scaled to 25 million parameters surpasses the current state-of-the-art non-equivariant base model with 64 million parameters on the GEOM-DRUGS benchmark. We implemented relative positional encoding as a negative attention bias that linearly increases with the shortest path distances between graph nodes at varying slopes for different attention heads, similar to ALiBi, a widely adopted relative positional encoding technique in the NLP domain. This architecture has the potential to serve as a foundation for a novel class of generative models for molecular conformations.

Humans have the ability to adapt the type of information they use, the procedure they employ, and the amount of time they spend when solving problems. However, most standard neural networks have a fixed function type and computation budget regardless of the sample's nature or difficulty. Adaptivity is a powerful paradigm as it not only imbues practitioners with flexibility pertaining to the downstream usage of these models but can also serve as a powerful inductive bias for solving certain challenging classes of problems. In this work, we introduce a new approach called AdaTape, which allows for dynamic computation in neural networks through adaptive tape tokens. AdaTape utilizes an elastic input sequence by equipping an architecture with a dynamic read-and-write tape. Specifically, we adaptively generate input sequences using tape tokens obtained from a tape bank which can be either trainable or derived from input data. We examine the challenges and requirements to obtain dynamic sequence content and length, and propose the Adaptive Tape Reading (ATR) algorithm to achieve both goals. Through extensive experiments on image recognition tasks, we show that AdaTape can achieve better performance while maintaining the computational cost. To facilitate further research, we have released code at https://github.com/google-research/scenic.

The KV cache used in large language models has linearly growing time complexity, so LLMs face memory blow-up and reduced decoding efficiency when they process long contexts. Current KV Cache eviction has become an important research direction; however, existing methods based on fixed Soft Tokens (e.g., Judge Q) rely on a static parameter set as the query to evaluate the importance of KV pairs, so they cannot adapt dynamically to different input prompts, and they cannot precisely capture complex and changing task relevance. Also, evicted KV pairs are discarded permanently, so this causes irreversible information loss and context breaks. To address this problem, we propose Meta-Soft, a dynamic compression framework based on probe-driven context integration. Specifically, we build a meta-library with a learnable orthogonal basis matrix L, and we use a selector network with Gumbel-Softmax to produce differentiable sparse combination weights, so we dynamically synthesize the most targeted k Soft Tokens from the input prompt features. We append these Soft Tokens to the end of the input sequence to probe key information. We also introduce an attention-flow based integration mechanism, which redistributes the semantic information of removed tokens into retained tokens, and this keeps the dropped context information effectively. Experiments on multiple datasets show that our method outperforms existing state-of-the-art eviction methods and provides a new solution for KV Cache compression.

Large language models (LLMs) have achieved remarkable success in contextual knowledge understanding. In this paper, we show that these concentrated massive values consistently emerge in specific regions of attention queries (Q) and keys (K) while not having such patterns in values (V) in various modern transformer-based LLMs (Q, K, and V mean the representations output by the query, key, and value layers respectively). Through extensive experiments, we further demonstrate that these massive values play a critical role in interpreting contextual knowledge (knowledge obtained from the current context window) rather than in retrieving parametric knowledge stored within the model's parameters. Our further investigation of quantization strategies reveals that ignoring these massive values leads to a pronounced drop in performance on tasks requiring rich contextual understanding, aligning with our analysis. Finally, we trace the emergence of concentrated massive values and find that such concentration is caused by Rotary Positional Encoding (RoPE), which has appeared since the first layers. These findings shed new light on how Q and K operate in LLMs and offer practical insights for model design and optimization. The Code is Available at https://github.com/MingyuJ666/Rope_with_LLM.

Egocentric video-language understanding demands both high efficiency and accurate spatial-temporal modeling. Existing approaches face three key challenges: 1) Excessive pre-training cost arising from multi-stage pre-training pipelines, 2) Ineffective spatial-temporal encoding due to manually split 3D rotary positional embeddings that hinder feature interactions, and 3) Imprecise learning objectives in soft-label multi-instance retrieval, which neglect negative pair correlations. In this paper, we introduce EVA02-AT, a suite of EVA02-based video-language foundation models tailored to egocentric video understanding tasks. EVA02-AT first efficiently transfers an image-based CLIP model into a unified video encoder via a single-stage pretraining. Second, instead of applying rotary positional embeddings to isolated dimensions, we introduce spatial-temporal rotary positional embeddings along with joint attention, which can effectively encode both spatial and temporal information on the entire hidden dimension. This joint encoding of spatial-temporal features enables the model to learn cross-axis relationships, which are crucial for accurately modeling motion and interaction in videos. Third, focusing on multi-instance video-language retrieval tasks, we introduce the Symmetric Multi-Similarity (SMS) loss and a novel training framework that advances all soft labels for both positive and negative pairs, providing a more precise learning objective. Extensive experiments on Ego4D, EPIC-Kitchens-100, and Charades-Ego under zero-shot and fine-tuning settings demonstrate that EVA02-AT achieves state-of-the-art performance across diverse egocentric video-language tasks with fewer parameters. Models with our SMS loss also show significant performance gains on multi-instance retrieval benchmarks. Our code and models are publicly available at https://github.com/xqwang14/EVA02-AT .

We study positional encodings for multi-view transformers that process tokens from a set of posed input images, and seek a mechanism that encodes patches uniquely, allows SE(3)-invariant attention with multi-frequency similarity, and can be adaptive to the geometry of the underlying scene. We find that prior (absolute or relative) encoding schemes for multi-view attention do not meet the above desiderata, and present RayRoPE to address this gap. RayRoPE represents patch positions based on associated rays but leverages a predicted point along the ray instead of the direction for a geometry-aware encoding. To achieve SE(3) invariance, RayRoPE computes query-frame projective coordinates for computing multi-frequency similarity. Lastly, as the 'predicted' 3D point along a ray may not be precise, RayRoPE presents a mechanism to analytically compute the expected position encoding under uncertainty. We validate RayRoPE on the tasks of novel-view synthesis and stereo depth estimation and show that it consistently improves over alternate position encoding schemes (e.g. 15% relative improvement on LPIPS in CO3D). We also show that RayRoPE can seamlessly incorporate RGB-D input, resulting in even larger gains over alternatives that cannot positionally encode this information.

Effectively training language models on long inputs poses many technical challenges. As a cost consideration, languages models are pretrained on a fixed sequence length before being adapted to longer sequences. We explore various methods for adapting models to longer inputs by training on segmented sequences and an interpolation-based method for extending absolute positional embeddings. We develop a training procedure to extend the input context size of pretrained models with no architectural changes and no additional memory costs than training on the original input lengths. By sub-sampling segments from long inputs while maintaining their original position the model is able to learn new positional interactions. Our method benefits both models trained with absolute positional embeddings, by extending their input contexts, as well as popular relative positional embedding methods showing a reduced perplexity on sequences longer than they were trained on. We demonstrate our method can extend input contexts by a factor of 4x while improving perplexity.

In this paper, we give an in-depth analysis on the mathematical problem formulations and the probabilistic optimization explorations for some of the key components in Transformer model [33] in the field of generative AI. We explore and discuss some potential further enhancement for current state of the art methods for some key underlying technologies of generative AI models from algorithmic and probabilistic optimization perspective. In particular, we present an optimal solution for sub-word encoding (SWE) based on similar initial settings as that of byte-pair encoding (BPE) algorithm in [9] with similar objectives as that of WordPiece approach in [28, 31] to maximize the likelihood of the training data. We also present cross entropy optimization method to optimize hyperparameters for word2vec model [17]. In addition, we propose a factored combination of rotary positional encoding (RoPE) [32] and attention with linear biases (ALiBi) [23] with a harmonic series. We also present a probabilistic FlashAttention [6, 7] (PrFlashAttention) method with a probability distribution over block distances in the matrix to decide which block is likely to participate in a given round of attention computation while maintaining the lower triangle shape of the tensor for autoregressive language models by re-shaping the tensors. Finally, we present staircase adaptive quantization (SAQ) of key-value (KV) cache for multi-query attention (MQA) based on the framework presented in [16] to have gradual quantization degradation while achieving reasonable model quality and cost savings.

Large Language Models (LLMs) are primarily designed for batch processing. Existing methods for adapting LLMs to streaming rely either on expensive re-encoding or specialized architectures with limited scalability. This work identifies three key mismatches in adapting batch-oriented LLMs to streaming: (1) input-attention, (2) output-attention, and (3) position-ID mismatches. While it is commonly assumed that the latter two mismatches require frequent re-encoding, our analysis reveals that only the input-attention mismatch significantly impacts performance, indicating re-encoding outputs is largely unnecessary. To better understand this discrepancy with the common assumption, we provide the first comprehensive analysis of the impact of position encoding on LLMs in streaming, showing that preserving relative positions within source and target contexts is more critical than maintaining absolute order. Motivated by the above analysis, we introduce a group position encoding paradigm built on batch architectures to enhance consistency between streaming and batch modes. Extensive experiments on cross-lingual and cross-modal tasks demonstrate that our method outperforms existing approaches. Our method requires no architectural modifications, exhibits strong generalization in both streaming and batch modes. The code is available at repository https://github.com/EIT-NLP/StreamingLLM.

Recent advances in Video Large Language Models (VLLMs) have achieved remarkable video understanding capabilities, yet face critical efficiency bottlenecks due to quadratic computational growth with lengthy visual token sequences of long videos. While existing keyframe sampling methods can improve temporal modeling efficiency, additional computational cost is introduced before feature encoding, and the binary frame selection paradigm is found suboptimal. Therefore, in this work, we propose Dynamic Token compression via LLM-guided Keyframe prior (DyToK), a training-free paradigm that enables dynamic token compression by harnessing VLLMs' inherent attention mechanisms. Our analysis reveals that VLLM attention layers naturally encoding query-conditioned keyframe priors, by which DyToK dynamically adjusts per-frame token retention ratios, prioritizing semantically rich frames while suppressing redundancies. Extensive experiments demonstrate that DyToK achieves state-of-the-art efficiency-accuracy tradeoffs. DyToK shows plug-and-play compatibility with existing compression methods, such as VisionZip and FastV, attaining 4.3x faster inference while preserving accuracy across multiple VLLMs, such as LLaVA-OneVision and Qwen2.5-VL. Code is available at https://github.com/yu-lin-li/DyToK .

While explicit positional encodings such as RoPE are a primary source of positional information in Transformer decoders, the causal mask also provides positional information. In this work, we prove that the causal mask can induce position-dependent patterns in attention scores, even without parameters or causal dependency in the input. Our theoretical analysis indicates that the induced attention pattern tends to favor nearby query-key pairs, mirroring the behavior of common positional encodings. Empirical analysis confirms that trained models exhibit the same behavior, with learned parameters further amplifying these patterns. Notably, we found that the interaction of causal mask and RoPE distorts RoPE's relative attention score patterns into non-relative ones. We consistently observed this effect in modern large language models, suggesting the importance of considering the causal mask as a source of positional information alongside explicit positional encodings.

Addressing the limitation of context length in large language models for code-related tasks is the primary focus of this paper. Existing LLMs are constrained by their pre-trained context lengths, leading to performance issues in handling long complex code sequences. Inspired by how human programmers navigate code, we introduce Hierarchical Rotary Position Embedding (HiRoPE), a novel approach that enhances the traditional rotary position embedding into a hierarchical format based on the hierarchical structure of source code. HiRoPE offers easy integration into existing LLMs without extra training costs. Our method is extensively evaluated with various LLMs, demonstrating stable performance in tasks such as language modeling and long code completion. We also introduce a new long code understanding task with real-world code projects, in hopes of promoting further development in this code-related field. Theoretically and experimentally, we find that HiRoPE also addresses the out-of-distribution issue in position encoding. Our HiRoPE significantly expands the context length capabilities of LLMs, enabling inference at lengths exponentially greater than the training length.

Diffusion language models (DLMs) have recently emerged as a promising alternative to autoregressive models, primarily due to their ability to enable parallel decoding. Despite this advantage, most existing DLMs rely on a fixed generation length specified prior to decoding, which restricts their flexibility in real-world applications. While a few recent works attempt to support flexible-length generation, they typically suffer from notable limitations: some require costly retraining to accommodate variable-length outputs, while others depend solely on local confidence signals during decoding. Such local criteria fail to capture the evolving structure of the sequence, often resulting in suboptimal generation quality. In this paper, we propose a training-free, Bayesian structured decoding framework that formulates flexible-length generation as a dynamic structural inference problem. Our approach formulates flexible-length generation as a dynamic structural inference problem, jointly computing the expansion length, the block boundaries, and the decoding schedule. At each window expansion step, the method integrates local uncertainty with structural signals via a unified mechanism that supports dynamic structured generation, including both flexible block expansion and block organization, while maintaining coherence. Extensive experiments across multiple benchmarks demonstrate that our approach significantly improves generation quality and flexibility over existing fixed-length and flexible-length baselines. These results highlight the advantage of Bayesian structured decoding for diffusion language model, providing a principled and efficient solution for structured text generation.

Recent studies have shown that, relative position encoding performs well in selective state space model scanning algorithms, and the architecture that balances SSM and Attention enhances the efficiency and effectiveness of the algorithm, while the sparse activation of the mixture of experts reduces the training cost. I studied the effectiveness of using different position encodings in structured state space dual algorithms, and the more effective SSD-Attn internal and external function mixing method, and designed a more efficient cross domain mixture of experts. I found that the same matrix is very wonderful in different algorithms, which allows us to establish a new hybrid sparse architecture: Cheems. Compared with other hybrid architectures, it is more efficient and more effective in language modeling tasks.

It has long been known in both neuroscience and AI that ``binding'' between neurons leads to a form of competitive learning where representations are compressed in order to represent more abstract concepts in deeper layers of the network. More recently, it was also hypothesized that dynamic (spatiotemporal) representations play an important role in both neuroscience and AI. Building on these ideas, we introduce Artificial Kuramoto Oscillatory Neurons (AKOrN) as a dynamical alternative to threshold units, which can be combined with arbitrary connectivity designs such as fully connected, convolutional, or attentive mechanisms. Our generalized Kuramoto updates bind neurons together through their synchronization dynamics. We show that this idea provides performance improvements across a wide spectrum of tasks such as unsupervised object discovery, adversarial robustness, calibrated uncertainty quantification, and reasoning. We believe that these empirical results show the importance of rethinking our assumptions at the most basic neuronal level of neural representation, and in particular show the importance of dynamical representations.

Large Language Models (LLMs) face computational inefficiencies and redundant processing when handling long context inputs, prompting a focus on compression techniques. While existing semantic vector-based compression methods achieve promising performance, these methods fail to account for the intrinsic information density variations between context chunks, instead allocating soft tokens uniformly across context chunks. This uniform distribution inevitably diminishes allocation to information-critical regions. To address this, we propose Dynamic Allocation of Soft Tokens (DAST), a simple yet effective method that leverages the LLM's intrinsic understanding of contextual relevance to guide compression. DAST combines perplexity-based local information with attention-driven global information to dynamically allocate soft tokens to the informative-rich chunks, enabling effective, context-aware compression. Experimental results across multiple benchmarks demonstrate that DAST surpasses state-of-the-art methods.

The performance of Large Language Models (LLMs) is significantly sensitive to the contextual position of information in the input. To investigate the mechanism behind this positional bias, our extensive experiments reveal a consistent phenomenon we term the attention basin: when presented with a sequence of structured items (e.g., retrieved documents or few-shot examples), models systematically assign higher attention to the items at the beginning and end of the sequence, while neglecting those in the middle. Crucially, our analysis further reveals that allocating higher attention to critical information is key to enhancing model performance. Based on these insights, we introduce Attention-Driven Reranking (AttnRank), a two-stage framework that (i) estimates a model's intrinsic positional attention preferences using a small calibration set, and (ii) reorders retrieved documents or few-shot examples to align the most salient content with these high-attention positions. AttnRank is a model-agnostic, training-free, and plug-and-play method with minimal computational overhead. Experiments on multi-hop QA and few-shot in-context learning tasks demonstrate that AttnRank achieves substantial improvements across 10 large language models of varying architectures and scales, without modifying model parameters or training procedures.

Seeking high-quality representations with latent variable models (LVMs) to reveal the intrinsic correlation between neural activity and behavior or sensory stimuli has attracted much interest. In the study of the biological visual system, naturalistic visual stimuli are inherently high-dimensional and time-dependent, leading to intricate dynamics within visual neural activity. However, most work on LVMs has not explicitly considered neural temporal relationships. To cope with such conditions, we propose Time-Evolving Visual Dynamical System (TE-ViDS), a sequential LVM that decomposes neural activity into low-dimensional latent representations that evolve over time. To better align the model with the characteristics of visual neural activity, we split latent representations into two parts and apply contrastive learning to shape them. Extensive experiments on synthetic datasets and real neural datasets from the mouse visual cortex demonstrate that TE-ViDS achieves the best decoding performance on naturalistic scenes/movies, extracts interpretable latent trajectories that uncover clear underlying neural dynamics, and provides new insights into differences in visual information processing between subjects and between cortical regions. In summary, TE-ViDS is markedly competent in extracting stimulus-relevant embeddings from visual neural activity and contributes to the understanding of visual processing mechanisms. Our codes are available at https://github.com/Grasshlw/Time-Evolving-Visual-Dynamical-System.

We study the extent to which rotary position encodings (RoPE), a recent transformer position encoding algorithm broadly adopted in large language models (LLMs) and vision transformers (ViTs), can be applied to graph-structured data. We find that rotating tokens depending on the spectrum of the graph Laplacian efficiently injects structural information into the attention mechanism, boosting performance in synthetic and real-world graph learning tasks. This approach, coined _Wave-Induced Rotary Encodings_ (WIRE), enjoys intriguing theoretical properties: it recovers regular RoPE on grids, and depends asymptotically on the graph effective resistance. Unlike bias-based relative position encodings, WIRE is compatible with linear attention.

Since the introduction of the transformer model by Vaswani et al. (2017), a fundamental question has yet to be answered: how does a model achieve extrapolation at inference time for sequences that are longer than it saw during training? We first show that extrapolation can be enabled by simply changing the position representation method, though we find that current methods do not allow for efficient extrapolation. We therefore introduce a simpler and more efficient position method, Attention with Linear Biases (ALiBi). ALiBi does not add positional embeddings to word embeddings; instead, it biases query-key attention scores with a penalty that is proportional to their distance. We show that this method trains a 1.3 billion parameter model on input sequences of length 1024 that extrapolates to input sequences of length 2048, achieving the same perplexity as a sinusoidal position embedding model trained on inputs of length 2048 but training 11% faster and using 11% less memory. ALiBi's inductive bias towards recency also leads it to outperform multiple strong position methods on the WikiText-103 benchmark.

Key-Value (KV) cache remains a major bottleneck for deploying Large Language Models (LLMs) in long-generation tasks. Prior work often applies uniform compression across both prefill and decoding caches, but compressing the prefill cache degrades performance by corrupting critical context. While preserving the prefill cache is essential, decoding-phase compression remains underexplored, with existing methods relying on rigid recency windows or instantaneous attention. Our analysis of attention dynamics reveals strong temporal patterns: critical tokens receive sustained attention over long horizons, while local reasoning involves short-lived bursts. Static heuristics fail to capture this behavior, leading to premature eviction of important tokens or retention of stale ones. We propose Moment-KV, a decoding-time KV cache compression method based on momentum-driven temporal attention aggregation. Our method models token importance as a continuously evolving state, where attention is aggregated with decay, capturing both long-term influence and recent relevance. Experiments show that Moment-KV significantly improves generation fidelity in long-generation tasks (2.3-3.2 %) while maintaining decoding latency.

The state space models, employing recursively propagated features, demonstrate strong representation capabilities comparable to Transformer models and superior efficiency. However, constrained by the inherent geometric constraints of sequences, it still falls short in modeling long-range dependencies. To address this issue, we propose the GrootVL network, which first dynamically generates a tree topology based on spatial relationships and input features. Then, feature propagation is performed based on this graph, thereby breaking the original sequence constraints to achieve stronger representation capabilities. Additionally, we introduce a linear complexity dynamic programming algorithm to enhance long-range interactions without increasing computational cost. GrootVL is a versatile multimodal framework that can be applied to both visual and textual tasks. Extensive experiments demonstrate that our method significantly outperforms existing structured state space models on image classification, object detection and segmentation. Besides, by fine-tuning large language models, our approach achieves consistent improvements in multiple textual tasks at minor training cost.

Position encoding (PE), an essential part of self-attention networks (SANs), is used to preserve the word order information for natural language processing tasks, generating fixed position indices for input sequences. However, in cross-lingual scenarios, e.g. machine translation, the PEs of source and target sentences are modeled independently. Due to word order divergences in different languages, modeling the cross-lingual positional relationships might help SANs tackle this problem. In this paper, we augment SANs with cross-lingual position representations to model the bilingually aware latent structure for the input sentence. Specifically, we utilize bracketing transduction grammar (BTG)-based reordering information to encourage SANs to learn bilingual diagonal alignments. Experimental results on WMT'14 EnglishRightarrowGerman, WAT'17 JapaneseRightarrowEnglish, and WMT'17 ChineseLeftrightarrowEnglish translation tasks demonstrate that our approach significantly and consistently improves translation quality over strong baselines. Extensive analyses confirm that the performance gains come from the cross-lingual information.

Modern large language models (LLMs) that rely on attention mechanisms are typically trained with fixed context lengths which enforce upper limits on the length of input sequences that they can handle at evaluation time. To use these models on sequences longer than the train-time context length, one might employ techniques from the growing family of context length extrapolation methods -- most of which focus on modifying the system of positional encodings used in the attention mechanism to indicate where tokens or activations are located in the input sequence. We conduct a wide survey of existing methods of context length extrapolation on a base LLaMA or LLaMA 2 model, and introduce some of our own design as well -- in particular, a new truncation strategy for modifying the basis for the position encoding. We test these methods using three new evaluation tasks (FreeFormQA, AlteredNumericQA, and LongChat-Lines) as well as perplexity, which we find to be less fine-grained as a measure of long context performance of LLMs. We release the three tasks publicly as datasets on HuggingFace. We discover that linear scaling is the best method for extending context length, and show that further gains can be achieved by using longer scales at evaluation time. We also discover promising extrapolation capabilities in the truncated basis. To support further research in this area, we release three new 13B parameter long-context models which we call Giraffe: 4k and 16k context models trained from base LLaMA-13B, and a 32k context model trained from base LLaMA2-13B. We also release the code to replicate our results.