Daily Papers

Large pre-trained language models for textual data have an unconstrained output space; at each decoding step, they can produce any of 10,000s of sub-word tokens. When fine-tuned to target constrained formal languages like SQL, these models often generate invalid code, rendering it unusable. We propose PICARD (code and trained models available at https://github.com/ElementAI/picard), a method for constraining auto-regressive decoders of language models through incremental parsing. PICARD helps to find valid output sequences by rejecting inadmissible tokens at each decoding step. On the challenging Spider and CoSQL text-to-SQL translation tasks, we show that PICARD transforms fine-tuned T5 models with passable performance into state-of-the-art solutions.

The past several years have witnessed Variational Auto-Encoder's superiority in various text generation tasks. However, due to the sequential nature of the text, auto-regressive decoders tend to ignore latent variables and then reduce to simple language models, known as the KL vanishing problem, which would further deteriorate when VAE is combined with Transformer-based structures. To ameliorate this problem, we propose DELLA, a novel variational Transformer framework. DELLA learns a series of layer-wise latent variables with each inferred from those of lower layers and tightly coupled with the hidden states by low-rank tensor product. In this way, DELLA forces these posterior latent variables to be fused deeply with the whole computation path and hence incorporate more information. We theoretically demonstrate that our method can be regarded as entangling latent variables to avoid posterior information decrease through layers, enabling DELLA to get higher non-zero KL values even without any annealing or thresholding tricks. Experiments on four unconditional and three conditional generation tasks show that DELLA could better alleviate KL vanishing and improve both quality and diversity compared to several strong baselines.

General-purpose navigation in challenging environments remains a significant problem in robotics, with current state-of-the-art approaches facing myriad limitations. Classical approaches struggle with cluttered settings and require extensive tuning, while learning-based methods face difficulties generalizing to out-of-distribution environments. This paper introduces X-Mobility, an end-to-end generalizable navigation model that overcomes existing challenges by leveraging three key ideas. First, X-Mobility employs an auto-regressive world modeling architecture with a latent state space to capture world dynamics. Second, a diverse set of multi-head decoders enables the model to learn a rich state representation that correlates strongly with effective navigation skills. Third, by decoupling world modeling from action policy, our architecture can train effectively on a variety of data sources, both with and without expert policies: off-policy data allows the model to learn world dynamics, while on-policy data with supervisory control enables optimal action policy learning. Through extensive experiments, we demonstrate that X-Mobility not only generalizes effectively but also surpasses current state-of-the-art navigation approaches. Additionally, X-Mobility also achieves zero-shot Sim2Real transferability and shows strong potential for cross-embodiment generalization.

Camera trajectory design plays a crucial role in video production, serving as a fundamental tool for conveying directorial intent and enhancing visual storytelling. In cinematography, Directors of Photography meticulously craft camera movements to achieve expressive and intentional framing. However, existing methods for camera trajectory generation remain limited: Traditional approaches rely on geometric optimization or handcrafted procedural systems, while recent learning-based methods often inherit structural biases or lack textual alignment, constraining creative synthesis. In this work, we introduce an auto-regressive model inspired by the expertise of Directors of Photography to generate artistic and expressive camera trajectories. We first introduce DataDoP, a large-scale multi-modal dataset containing 29K real-world shots with free-moving camera trajectories, depth maps, and detailed captions in specific movements, interaction with the scene, and directorial intent. Thanks to the comprehensive and diverse database, we further train an auto-regressive, decoder-only Transformer for high-quality, context-aware camera movement generation based on text guidance and RGBD inputs, named GenDoP. Extensive experiments demonstrate that compared to existing methods, GenDoP offers better controllability, finer-grained trajectory adjustments, and higher motion stability. We believe our approach establishes a new standard for learning-based cinematography, paving the way for future advancements in camera control and filmmaking. Our project website: https://kszpxxzmc.github.io/GenDoP/.

The "Reversal Curse" refers to the scenario where auto-regressive decoder large language models (LLMs), such as ChatGPT, trained on "A is B" fail to learn "B is A", demonstrating a basic failure of logical deduction. This raises a red flag in the use of GPT models for certain general tasks such as constructing knowledge graphs, considering their adherence to this symmetric principle. In our study, we examined a bidirectional LLM, BERT, and found that it is immune to the reversal curse. Driven by ongoing efforts to construct biomedical knowledge graphs with LLMs, we also embarked on evaluating more complex but essential deductive reasoning capabilities. This process included first training encoder and decoder language models to master the intersection (cap) and union (cup) operations on two sets and then moving on to assess their capability to infer different combinations of union (cup) and intersection (cap) operations on three newly created sets. The findings showed that while both encoder and decoder language models, trained for tasks involving two sets (union/intersection), were proficient in such scenarios, they encountered difficulties when dealing with operations that included three sets (various combinations of union and intersection). Our research highlights the distinct characteristics of encoder and decoder models in simple and complex logical reasoning. In practice, the choice between BERT and GPT should be guided by the specific requirements and nature of the task at hand, leveraging their respective strengths in bidirectional context comprehension and sequence prediction.

In this paper, we present Paramanu-Ganita, a 208 million parameter novel Auto Regressive (AR) decoder based language model on mathematics. The model is pretrained from scratch at context size of 4096 on our curated mixed mathematical corpus. We evaluate our model on both perplexity metric and GSM8k mathematical benchmark. Paramanu-Ganita despite being 35 times smaller than 7B LLMs, outperformed generalist LLMs such as LLaMa-1 7B by 28.4% points, LLaMa-2 7B by 27.6% points, Falcon 7B by 32.6% points, PaLM 8B by 35.3% points, and math specialised LLMs such as Minerva 8B by 23.2% points, and LLEMMA-7B by 3.0% points in GSM8k test accuracy metric respectively. Paramanu-Ganita also outperformed giant LLMs like PaLM 62B by 6.4% points, Falcon 40B by 19.8% points, LLaMa-1 33B by 3.8% points and Vicuna 13B by 11.8% points respectively. The large significant margin improvement in performance of our math model over the existing LLMs signifies that reasoning capabilities of language model are just not restricted to LLMs with humongous number of parameters. Paramanu-Ganita took 146 hours of A100 training whereas math specialised LLM, LLEMMA 7B, was trained for 23,000 A100 hours of training equivalent. Thus, our approach of pretraining powerful domain specialised language models from scratch for domain adaptation is much more cost-effective than performing continual training of LLMs for domain adaptation. Hence, we conclude that for strong mathematical reasoning abilities of language model, we do not need giant LLMs and immense computing power to our end. In the end, we want to point out that we have only trained Paramanu-Ganita only on a part of our entire mathematical corpus and yet to explore the full potential of our model.

Generative models have recently started to outperform extractive models in Open Domain Question Answering, largely by leveraging their decoder to attend over multiple encoded passages and combining their information. However, generative models tend to be larger than extractive models due to the need for a decoder, run slower during inference due to auto-regressive decoder beam search, and their generated output often suffers from hallucinations. We propose to extend transformer encoders with the ability to fuse information from multiple passages, using global representation to provide cross-sample attention over all tokens across samples. Furthermore, we propose an alternative answer span probability calculation to better aggregate answer scores in the global space of all samples. Using our proposed method, we outperform the current state-of-the-art method by 2.5 Exact Match score on the Natural Question dataset while using only 25% of parameters and 35% of the latency during inference, and 4.4 Exact Match on WebQuestions dataset. When coupled with synthetic data augmentation, we outperform larger models on the TriviaQA dataset as well. The latency and parameter savings of our method make it particularly attractive for open-domain question answering, as these models are often compute-intensive.

We propose DocFormerv2, a multi-modal transformer for Visual Document Understanding (VDU). The VDU domain entails understanding documents (beyond mere OCR predictions) e.g., extracting information from a form, VQA for documents and other tasks. VDU is challenging as it needs a model to make sense of multiple modalities (visual, language and spatial) to make a prediction. Our approach, termed DocFormerv2 is an encoder-decoder transformer which takes as input - vision, language and spatial features. DocFormerv2 is pre-trained with unsupervised tasks employed asymmetrically i.e., two novel document tasks on encoder and one on the auto-regressive decoder. The unsupervised tasks have been carefully designed to ensure that the pre-training encourages local-feature alignment between multiple modalities. DocFormerv2 when evaluated on nine datasets shows state-of-the-art performance over strong baselines e.g. TabFact (4.3%), InfoVQA (1.4%), FUNSD (1%). Furthermore, to show generalization capabilities, on three VQA tasks involving scene-text, Doc- Formerv2 outperforms previous comparably-sized models and even does better than much larger models (such as GIT2, PaLi and Flamingo) on some tasks. Extensive ablations show that due to its pre-training, DocFormerv2 understands multiple modalities better than prior-art in VDU.

This paper introduces a discrete diffusion model (DDM) framework for text-aligned speech tokenization and reconstruction. By replacing the auto-regressive speech decoder with a discrete diffusion counterpart, our model achieves significantly better reconstruction quality, stronger ASR performance, and faster inference. We provide a comprehensive analysis of applying DDMs to speech reconstruction, examining sampler choices, inference steps, and robustness to length-scale estimation errors. Furthermore, we improve the original TASTE by systematically comparing vector quantization modules, showing that FSQ yields up to a 35% relative WER reduction and +0.14 UT-MOS improvement over RVQ for AR models, while also enhancing DDM performance. Our model generates speech in just 10 denoising steps and even supports single-step generation with only minor quality degradation.

The image captioning task is typically realized by an auto-regressive method that decodes the text tokens one by one. We present a diffusion-based captioning model, dubbed the name DDCap, to allow more decoding flexibility. Unlike image generation, where the output is continuous and redundant with a fixed length, texts in image captions are categorical and short with varied lengths. Therefore, naively applying the discrete diffusion model to text decoding does not work well, as shown in our experiments. To address the performance gap, we propose several key techniques including best-first inference, concentrated attention mask, text length prediction, and image-free training. On COCO without additional caption pre-training, it achieves a CIDEr score of 117.8, which is +5.0 higher than the auto-regressive baseline with the same architecture in the controlled setting. It also performs +26.8 higher CIDEr score than the auto-regressive baseline (230.3 v.s.203.5) on a caption infilling task. With 4M vision-language pre-training images and the base-sized model, we reach a CIDEr score of 125.1 on COCO, which is competitive to the best well-developed auto-regressive frameworks. The code is available at https://github.com/buxiangzhiren/DDCap.

We introduce OneCAT, a unified multimodal model that seamlessly integrates understanding, generation, and editing within a novel, pure decoder-only transformer architecture. Our framework uniquely eliminates the need for external components such as Vision Transformers (ViT) or vision tokenizer during inference, leading to significant efficiency gains, especially for high-resolution inputs. This is achieved through a modality-specific Mixture-of-Experts (MoE) structure trained with a single autoregressive (AR) objective, which also natively supports dynamic resolutions. Furthermore, we pioneer a multi-scale visual autoregressive mechanism within the Large Language Model (LLM) that drastically reduces decoding steps compared to diffusion-based methods while maintaining state-of-the-art performance. Our findings demonstrate the powerful potential of pure autoregressive modeling as a sufficient and elegant foundation for unified multimodal intelligence. As a result, OneCAT sets a new performance standard, outperforming existing open-source unified multimodal models across benchmarks for multimodal generation, editing, and understanding.

Recent works showed the possibility of building open-vocabulary large language models (LLMs) that directly operate on pixel representations and are implemented as encoder-decoder models that reconstruct masked image patches of rendered text. However, these pixel-based LLMs are limited to autoencoding tasks and cannot generate new text as images. As such, they cannot be used for open-answer or generative language tasks. In this work, we overcome this limitation and introduce PIXAR, the first pixel-based autoregressive LLM that does not rely on a pre-defined vocabulary for both input and output text. Consisting of only a decoder, PIXAR can answer free-form generative tasks while keeping the text representation learning performance on par with previous encoder-decoder models. Furthermore, we highlight the challenges to autoregressively generate non-blurred text as images and link this to the usual maximum likelihood objective. We propose a simple adversarial pretraining that significantly improves the readability and performance of PIXAR making it comparable to GPT2 on short text generation tasks. This paves the way to building open-vocabulary LLMs that are usable for free-form generative tasks and questions the necessity of the usual symbolic input representation -- text as tokens -- for these challenging tasks.

Model-based reinforcement learning agents utilizing transformers have shown improved sample efficiency due to their ability to model extended context, resulting in more accurate world models. However, for complex reasoning and planning tasks, these methods primarily rely on continuous representations. This complicates modeling of discrete properties of the real world such as disjoint object classes between which interpolation is not plausible. In this work, we introduce discrete abstract representations for transformer-based learning (DART), a sample-efficient method utilizing discrete representations for modeling both the world and learning behavior. We incorporate a transformer-decoder for auto-regressive world modeling and a transformer-encoder for learning behavior by attending to task-relevant cues in the discrete representation of the world model. For handling partial observability, we aggregate information from past time steps as memory tokens. DART outperforms previous state-of-the-art methods that do not use look-ahead search on the Atari 100k sample efficiency benchmark with a median human-normalized score of 0.790 and beats humans in 9 out of 26 games. We release our code at https://pranaval.github.io/DART/.

Deep learning for time series forecasting has seen significant advancements over the past decades. However, despite the success of large-scale pre-training in language and vision domains, pre-trained time series models remain limited in scale and operate at a high cost, hindering the development of larger capable forecasting models in real-world applications. In response, we introduce Time-MoE, a scalable and unified architecture designed to pre-train larger, more capable forecasting foundation models while reducing inference costs. By leveraging a sparse mixture-of-experts (MoE) design, Time-MoE enhances computational efficiency by activating only a subset of networks for each prediction, reducing computational load while maintaining high model capacity. This allows Time-MoE to scale effectively without a corresponding increase in inference costs. Time-MoE comprises a family of decoder-only transformer models that operate in an auto-regressive manner and support flexible forecasting horizons with varying input context lengths. We pre-trained these models on our newly introduced large-scale data Time-300B, which spans over 9 domains and encompassing over 300 billion time points. For the first time, we scaled a time series foundation model up to 2.4 billion parameters, achieving significantly improved forecasting precision. Our results validate the applicability of scaling laws for training tokens and model size in the context of time series forecasting. Compared to dense models with the same number of activated parameters or equivalent computation budgets, our models consistently outperform them by large margin. These advancements position Time-MoE as a state-of-the-art solution for tackling real-world time series forecasting challenges with superior capability, efficiency, and flexibility.

User interface modeling is inherently multimodal, which involves several distinct types of data: images, structures and language. The tasks are also diverse, including object detection, language generation and grounding. In this paper, we present VUT, a Versatile UI Transformer that takes multimodal input and simultaneously accomplishes 5 distinct tasks with the same model. Our model consists of a multimodal Transformer encoder that jointly encodes UI images and structures, and performs UI object detection when the UI structures are absent in the input. Our model also consists of an auto-regressive Transformer model that encodes the language input and decodes output, for both question-answering and command grounding with respect to the UI. Our experiments show that for most of the tasks, when trained jointly for multi-tasks, VUT substantially reduces the number of models and footprints needed for performing multiple tasks, while achieving accuracy exceeding or on par with baseline models trained for each individual task.

The recent emergence of joint CTC-Attention model shows significant improvement in automatic speech recognition (ASR). The improvement largely lies in the modeling of linguistic information by decoder. The decoder joint-optimized with an acoustic encoder renders the language model from ground-truth sequences in an auto-regressive manner during training. However, the training corpus of the decoder is limited to the speech transcriptions, which is far less than the corpus needed to train an acceptable language model. This leads to poor robustness of decoder. To alleviate this problem, we propose linguistic-enhanced transformer, which introduces refined CTC information to decoder during training process, so that the decoder can be more robust. Our experiments on AISHELL-1 speech corpus show that the character error rate (CER) is relatively reduced by up to 7%. We also find that in joint CTC-Attention ASR model, decoder is more sensitive to linguistic information than acoustic information.

Pre-trained models for programming languages have recently demonstrated great success on code intelligence. To support both code-related understanding and generation tasks, recent works attempt to pre-train unified encoder-decoder models. However, such encoder-decoder framework is sub-optimal for auto-regressive tasks, especially code completion that requires a decoder-only manner for efficient inference. In this paper, we present UniXcoder, a unified cross-modal pre-trained model for programming language. The model utilizes mask attention matrices with prefix adapters to control the behavior of the model and leverages cross-modal contents like AST and code comment to enhance code representation. To encode AST that is represented as a tree in parallel, we propose a one-to-one mapping method to transform AST in a sequence structure that retains all structural information from the tree. Furthermore, we propose to utilize multi-modal contents to learn representation of code fragment with contrastive learning, and then align representations among programming languages using a cross-modal generation task. We evaluate UniXcoder on five code-related tasks over nine datasets. To further evaluate the performance of code fragment representation, we also construct a dataset for a new task, called zero-shot code-to-code search. Results show that our model achieves state-of-the-art performance on most tasks and analysis reveals that comment and AST can both enhance UniXcoder.

Radiology report generation (RRG) has attracted significant attention due to its potential to reduce the workload of radiologists. Current RRG approaches are still unsatisfactory against clinical standards. This paper introduces a novel RRG method, LM-RRG, that integrates large models (LMs) with clinical quality reinforcement learning to generate accurate and comprehensive chest X-ray radiology reports. Our method first designs a large language model driven feature extractor to analyze and interpret different regions of the chest X-ray image, emphasizing specific regions with medical significance. Next, based on the large model's decoder, we develop a multimodal report generator that leverages multimodal prompts from visual features and textual instruction to produce the radiology report in an auto-regressive way. Finally, to better reflect the clinical significant and insignificant errors that radiologists would normally assign in the report, we introduce a novel clinical quality reinforcement learning strategy. It utilizes the radiology report clinical quality (RadCliQ) metric as a reward function in the learning process. Extensive experiments on the MIMIC-CXR and IU-Xray datasets demonstrate the superiority of our method over the state of the art.

When the complete source sentence is provided, Large Language Models (LLMs) perform excellently in offline machine translation even with a simple prompt "Translate the following sentence from [src lang] into [tgt lang]:". However, in many real scenarios, the source tokens arrive in a streaming manner and simultaneous machine translation (SiMT) is required, then the efficiency and performance of decoder-only LLMs are significantly limited by their auto-regressive nature. To enable LLMs to achieve high-quality SiMT as efficiently as offline translation, we propose a novel paradigm that includes constructing supervised fine-tuning (SFT) data for SiMT, along with new training and inference strategies. To replicate the token input/output stream in SiMT, the source and target tokens are rearranged into an interleaved sequence, separated by special tokens according to varying latency requirements. This enables powerful LLMs to learn read and write operations adaptively, based on varying latency prompts, while still maintaining efficient auto-regressive decoding. Experimental results show that, even with limited SFT data, our approach achieves state-of-the-art performance across various SiMT benchmarks, and preserves the original abilities of offline translation. Moreover, our approach generalizes well to document-level SiMT setting without requiring specific fine-tuning, even beyond the offline translation model.

Pre-trained encoder-decoder transformer architectures have become increasingly popular recently with the advent of T5 models. T5 has also become more favorable over other architectures like BERT due to the amount of data that it is pre-trained on, increased scale of model parameter sizes and easy applicability to a diverse set of tasks due to the generative nature of the model. While being able to generalize to a wide variety of tasks, it is not clear that encoder-decoder architectures are the most efficient for fine-tuning tasks that don't require auto-regressive decoding. In this work, we study fine-tuning pre-trained encoder-decoder models for tasks such as classification, multi-label classification, and structured prediction. We propose EncT5, a framework for these problems, and illustrate instantiations for these tasks. Our experiment results show that EncT5 has advantages over T5 such as efficiency and usability out performs BERT when evaluated on publicly available pre-trained checkpoints.

There has been a recent explosion of computer vision models which perform many tasks and are composed of an image encoder (usually a ViT) and an autoregressive decoder (usually a Transformer). However, most of this work simply presents one system and its results, leaving many questions regarding design decisions and trade-offs of such systems unanswered. In this work, we aim to provide such answers. We take a close look at autoregressive decoders for multi-task learning in multimodal computer vision, including classification, captioning, visual question answering, and optical character recognition. Through extensive systematic experiments, we study the effects of task and data mixture, training and regularization hyperparameters, conditioning type and specificity, modality combination, and more. Importantly, we compare these to well-tuned single-task baselines to highlight the cost incurred by multi-tasking. A key finding is that a small decoder learned on top of a frozen pretrained encoder works surprisingly well. We call this setup locked-image tuning with decoder (LiT-decoder). It can be seen as teaching a decoder to interact with a pretrained vision model via natural language.

Recent advances in image and video creation, especially AI-based image synthesis, have led to the production of numerous visual scenes that exhibit a high level of abstractness and diversity. Consequently, Visual Storytelling (VST), a task that involves generating meaningful and coherent narratives from a collection of images, has become even more challenging and is increasingly desired beyond real-world imagery. While existing VST techniques, which typically use autoregressive decoders, have made significant progress, they suffer from low inference speed and are not well-suited for synthetic scenes. To this end, we propose a novel diffusion-based system DiffuVST, which models the generation of a series of visual descriptions as a single conditional denoising process. The stochastic and non-autoregressive nature of DiffuVST at inference time allows it to generate highly diverse narratives more efficiently. In addition, DiffuVST features a unique design with bi-directional text history guidance and multimodal adapter modules, which effectively improve inter-sentence coherence and image-to-text fidelity. Extensive experiments on the story generation task covering four fictional visual-story datasets demonstrate the superiority of DiffuVST over traditional autoregressive models in terms of both text quality and inference speed.

Diffusion-based large language models (DLLMs) have recently attracted growing interest as an alternative to autoregressive decoders. In this work, we present an empirical study on using the diffusion-based large language model LLaDA for automatic speech recognition (ASR). We first investigate its use as an external deliberation-based processing module for Whisper-LLaMA transcripts. By leveraging the bidirectional attention and denoising capabilities of LLaDA, we explore random masking, low-confidence masking, and semi-autoregressive strategies, showing that Whisper-LLaDA substantially reduces WER compared with the baseline. On LibriSpeech, the best cascade system achieves 2.25%/4.94% WER on test-clean/test-other, representing a 12.3% relative improvement over the Whisper-LLaMA baseline on the test-other split. In contrast, a plain-text LLaDA without acoustic features fails to improve accuracy, highlighting the importance of audio-conditioned embeddings. We further evaluate Whisper-LLaDA as a standalone decoder for ASR with diffusion-based and semi-autoregressive decoding. Most experimental configurations achieve faster inference than the Whisper-LLaMA baseline, although recognition accuracy is slightly lower. These findings offer an empirical view of diffusion-based LLMs for ASR and point to promising directions for improvements.

In addressing the task of converting natural language to SQL queries, there are several semantic and syntactic challenges. It becomes increasingly important to understand and remedy the points of failure as the performance of semantic parsing systems improve. We explore semantic parse correction with natural language feedback, proposing a new solution built on the success of autoregressive decoders in text-to-SQL tasks. By separating the semantic and syntactic difficulties of the task, we show that the accuracy of text-to-SQL parsers can be boosted by up to 26% with only one turn of correction with natural language. Additionally, we show that a T5-base model is capable of correcting the errors of a T5-large model in a zero-shot, cross-parser setting.

We present SkexGen, a novel autoregressive generative model for computer-aided design (CAD) construction sequences containing sketch-and-extrude modeling operations. Our model utilizes distinct Transformer architectures to encode topological, geometric, and extrusion variations of construction sequences into disentangled codebooks. Autoregressive Transformer decoders generate CAD construction sequences sharing certain properties specified by the codebook vectors. Extensive experiments demonstrate that our disentangled codebook representation generates diverse and high-quality CAD models, enhances user control, and enables efficient exploration of the design space. The code is available at https://samxuxiang.github.io/skexgen.

Fast Automatic Speech Recognition (ASR) is critical for latency-sensitive applications such as real-time captioning and meeting transcription. However, truly parallel ASR decoding remains challenging due to the sequential nature of autoregressive (AR) decoders and the context limitations of non-autoregressive (NAR) methods. While modern ASR encoders can process up to 30 seconds of audio at once, AR decoders still generate tokens sequentially, creating a latency bottleneck. We propose Whisfusion, the first framework to fuse a pre-trained Whisper encoder with a text diffusion decoder. This NAR architecture resolves the AR latency bottleneck by processing the entire acoustic context in parallel at every decoding step. A lightweight cross-attention adapter trained via parameter-efficient fine-tuning (PEFT) bridges the two modalities. We also introduce a batch-parallel, multi-step decoding strategy that improves accuracy by increasing the number of candidates with minimal impact on speed. Fine-tuned solely on LibriSpeech (960h), Whisfusion achieves a lower WER than Whisper-tiny (8.3% vs. 9.7%), and offers comparable latency on short audio. For longer utterances (>20s), it is up to 2.6x faster than the AR baseline, establishing a new, efficient operating point for long-form ASR. The implementation and training scripts are available at https://github.com/taeyoun811/Whisfusion.

Autoregressive (AR) models, common in sequence generation, are limited in many biological tasks such as de novo peptide sequencing and protein modeling by their unidirectional nature, failing to capture crucial global bidirectional token dependencies. Non-Autoregressive (NAR) models offer holistic, bidirectional representations but face challenges with generative coherence and scalability. To transcend this, we propose a hybrid framework enhancing AR generation by dynamically integrating rich contextual information from non-autoregressive mechanisms. Our approach couples a shared input encoder with two decoders: a non-autoregressive one learning latent bidirectional biological features, and an AR decoder synthesizing the biological sequence by leveraging these bidirectional features. A novel cross-decoder attention module enables the AR decoder to iteratively query and integrate these bidirectional features, enriching its predictions. This synergy is cultivated via a tailored training strategy with importance annealing for balanced objectives and cross-decoder gradient blocking for stable, focused learning. Evaluations on a demanding nine-species benchmark of de novo peptide sequencing show that our model substantially surpasses AR and NAR baselines. It uniquely harmonizes AR stability with NAR contextual awareness, delivering robust, superior performance on diverse downstream data. This research advances biological sequence modeling techniques and contributes a novel architectural paradigm for augmenting AR models with enhanced bidirectional understanding for complex sequence generation. Code is available at https://github.com/BEAM-Labs/denovo.

We propose a novel AutoRegressive Generation-based paradigm for image Segmentation (ARGenSeg), achieving multimodal understanding and pixel-level perception within a unified framework. Prior works integrating image segmentation into multimodal large language models (MLLMs) typically employ either boundary points representation or dedicated segmentation heads. These methods rely on discrete representations or semantic prompts fed into task-specific decoders, which limits the ability of the MLLM to capture fine-grained visual details. To address these challenges, we introduce a segmentation framework for MLLM based on image generation, which naturally produces dense masks for target objects. We leverage MLLM to output visual tokens and detokenize them into images using an universal VQ-VAE, making the segmentation fully dependent on the pixel-level understanding of the MLLM. To reduce inference latency, we employ a next-scale-prediction strategy to generate required visual tokens in parallel. Extensive experiments demonstrate that our method surpasses prior state-of-the-art approaches on multiple segmentation datasets with a remarkable boost in inference speed, while maintaining strong understanding capabilities.

Removing modeling constraints and unifying architectures across domains has been a key driver of the recent progress in training large multimodal models. However, most of these models still rely on many separately trained components such as modality-specific encoders and decoders. In this work, we further streamline joint generative modeling of images and text. We propose an autoregressive decoder-only transformer - JetFormer - which is trained to directly maximize the likelihood of raw data, without relying on any separately pretrained components, and can understand and generate both text and images. Specifically, we leverage a normalizing flow model to obtain a soft-token image representation that is jointly trained with an autoregressive multimodal transformer. The normalizing flow model serves as both an image encoder for perception tasks and an image decoder for image generation tasks during inference. JetFormer achieves text-to-image generation quality competitive with recent VQ-VAE- and VAE-based baselines. These baselines rely on pretrained image autoencoders, which are trained with a complex mixture of losses, including perceptual ones. At the same time, JetFormer demonstrates robust image understanding capabilities. To the best of our knowledge, JetFormer is the first model that is capable of generating high-fidelity images and producing strong log-likelihood bounds.

Data-driven and controllable human motion synthesis and prediction are active research areas with various applications in interactive media and social robotics. Challenges remain in these fields for generating diverse motions given past observations and dealing with imperfect poses. This paper introduces MoDiff, an autoregressive probabilistic diffusion model over motion sequences conditioned on control contexts of other modalities. Our model integrates a cross-modal Transformer encoder and a Transformer-based decoder, which are found effective in capturing temporal correlations in motion and control modalities. We also introduce a new data dropout method based on the diffusion forward process to provide richer data representations and robust generation. We demonstrate the superior performance of MoDiff in controllable motion synthesis for locomotion with respect to two baselines and show the benefits of diffusion data dropout for robust synthesis and reconstruction of high-fidelity motion close to recorded data.

Much recent effort has been invested in non-autoregressive neural machine translation, which appears to be an efficient alternative to state-of-the-art autoregressive machine translation on modern GPUs. In contrast to the latter, where generation is sequential, the former allows generation to be parallelized across target token positions. Some of the latest non-autoregressive models have achieved impressive translation quality-speed tradeoffs compared to autoregressive baselines. In this work, we reexamine this tradeoff and argue that autoregressive baselines can be substantially sped up without loss in accuracy. Specifically, we study autoregressive models with encoders and decoders of varied depths. Our extensive experiments show that given a sufficiently deep encoder, a single-layer autoregressive decoder can substantially outperform strong non-autoregressive models with comparable inference speed. We show that the speed disadvantage for autoregressive baselines compared to non-autoregressive methods has been overestimated in three aspects: suboptimal layer allocation, insufficient speed measurement, and lack of knowledge distillation. Our results establish a new protocol for future research toward fast, accurate machine translation. Our code is available at https://github.com/jungokasai/deep-shallow.

Recent advances in AI weather forecasting have led to the emergence of so-called "foundation models", typically defined by expensive pretraining and minimal fine-tuning for downstream tasks. However, in the natural sciences, a desirable foundation model should also encode meaningful statistical relationships between the underlying physical variables. This study evaluates the performance of the state-of-the-art Aurora foundation model in predicting hydrological variables, which were not considered during pretraining. We introduce a lightweight approach using shallow decoders trained on the latent representations of the pretrained model to predict these new variables. As a baseline, we compare this to fine-tuning the full model, which allows further optimization of the latent space while incorporating new variables into both inputs and outputs. The decoder-based approach requires 50% less training time and 35% less memory, while achieving strong accuracy across various hydrological variables and preserving desirable properties of the foundation model, such as autoregressive stability. Notably, decoder accuracy depends on the physical correlation between the new variables and those used during pretraining, indicating that Aurora's latent space captures meaningful physical relationships. In this sense, we argue that an important quality metric for foundation models in Earth sciences is their ability to be extended to new variables without a full fine-tuning. This provides a new perspective for making foundation models more accessible to communities with limited computational resources, while supporting broader adoption in Earth sciences.