Daily Papers

The human brain is a complex, dynamic network, which is commonly studied using functional magnetic resonance imaging (fMRI) and modeled as network of Regions of interest (ROIs) for understanding various brain functions. Recent studies utilize deep learning approaches to learn the brain network representation based on functional connectivity (FC) profile, broadly falling into two main categories. The Fixed-FC approaches, utilizing the FC profile which represents the linear temporal relation within the brain network, are limited by failing to capture informative brain temporal dynamics. On the other hand, the Dynamic-FC approaches, modeling the evolving FC profile over time, often exhibit less satisfactory performance due to challenges in handling the inherent noisy nature of fMRI data. To address these challenges, we propose Brain Masked Auto-Encoder (BrainMAE) for learning representations directly from fMRI time-series data. Our approach incorporates two essential components: a region-aware graph attention mechanism designed to capture the relationships between different brain ROIs, and a novel self-supervised masked autoencoding framework for effective model pre-training. These components enable the model to capture rich temporal dynamics of brain activity while maintaining resilience to inherent noise in fMRI data. Our experiments demonstrate that BrainMAE consistently outperforms established baseline methods by significant margins in four distinct downstream tasks. Finally, leveraging the model's inherent interpretability, our analysis of model-generated representations reveals findings that resonate with ongoing research in the field of neuroscience.

Self-Supervised Learning (SSL) presents an exciting opportunity to unlock the potential of vast, untapped clinical datasets, for various downstream applications that suffer from the scarcity of labeled data. While SSL has revolutionized fields like natural language processing and computer vision, its adoption in 3D medical image computing has been limited by three key pitfalls: Small pre-training dataset sizes, architectures inadequate for 3D medical image analysis, and insufficient evaluation practices. In this paper, we address these issues by i) leveraging a large-scale dataset of 39k 3D brain MRI volumes and ii) using a Residual Encoder U-Net architecture within the state-of-the-art nnU-Net framework. iii) A robust development framework, incorporating 5 development and 8 testing brain MRI segmentation datasets, allowed performance-driven design decisions to optimize the simple concept of Masked Auto Encoders (MAEs) for 3D CNNs. The resulting model not only surpasses previous SSL methods but also outperforms the strong nnU-Net baseline by an average of approximately 3 Dice points setting a new state-of-the-art. Our code and models are made available here.

Masked Autoencoder (MAE) is a self-supervised approach for representation learning, widely applicable to a variety of downstream tasks in computer vision. In spite of its success, it is still not fully uncovered what and how MAE exactly learns. In this paper, with an in-depth analysis, we discover that MAE intrinsically learns pattern-based patch-level clustering from surprisingly early stages of pretraining. Upon this understanding, we propose self-guided masked autoencoder, which internally generates informed mask by utilizing its progress in patch clustering, substituting the naive random masking of the vanilla MAE. Our approach significantly boosts its learning process without relying on any external models or supplementary information, keeping the benefit of self-supervised nature of MAE intact. Comprehensive experiments on various downstream tasks verify the effectiveness of the proposed method.

This paper shows that masked autoencoders (MAE) are scalable self-supervised learners for computer vision. Our MAE approach is simple: we mask random patches of the input image and reconstruct the missing pixels. It is based on two core designs. First, we develop an asymmetric encoder-decoder architecture, with an encoder that operates only on the visible subset of patches (without mask tokens), along with a lightweight decoder that reconstructs the original image from the latent representation and mask tokens. Second, we find that masking a high proportion of the input image, e.g., 75%, yields a nontrivial and meaningful self-supervisory task. Coupling these two designs enables us to train large models efficiently and effectively: we accelerate training (by 3x or more) and improve accuracy. Our scalable approach allows for learning high-capacity models that generalize well: e.g., a vanilla ViT-Huge model achieves the best accuracy (87.8%) among methods that use only ImageNet-1K data. Transfer performance in downstream tasks outperforms supervised pre-training and shows promising scaling behavior.

Multimodal magnetic resonance imaging (MRI) constitutes the first line of investigation for clinicians in the care of brain tumors, providing crucial insights for surgery planning, treatment monitoring, and biomarker identification. Pre-training on large datasets have been shown to help models learn transferable representations and adapt with minimal labeled data. This behavior is especially valuable in medical imaging, where annotations are often scarce. However, applying this paradigm to multimodal medical data introduces a challenge: most existing approaches assume that all imaging modalities are available during both pre-training and fine-tuning. In practice, missing modalities often occur due to acquisition issues, specialist unavailability, or specific experimental designs on small in-house datasets. Consequently, a common approach involves training a separate model for each desired modality combination, making the process both resource-intensive and impractical for clinical use. Therefore, we introduce BM-MAE, a masked image modeling pre-training strategy tailored for multimodal MRI data. The same pre-trained model seamlessly adapts to any combination of available modalities, extracting rich representations that capture both intra- and inter-modal information. This allows fine-tuning on any subset of modalities without requiring architectural changes, while still benefiting from a model pre-trained on the full set of modalities. Extensive experiments show that the proposed pre-training strategy outperforms or remains competitive with baselines that require separate pre-training for each modality subset, while substantially surpassing training from scratch on several downstream tasks. Additionally, it can quickly and efficiently reconstruct missing modalities, highlighting its practical value. Code and trained models are available at: https://github.com/Lucas-rbnt/BM-MAE

Masked AutoEncoders (MAE) have emerged as a robust self-supervised framework, offering remarkable performance across a wide range of downstream tasks. To increase the difficulty of the pretext task and learn richer visual representations, existing works have focused on replacing standard random masking with more sophisticated strategies, such as adversarial-guided and teacher-guided masking. However, these strategies depend on the input data thus commonly increasing the model complexity and requiring additional calculations to generate the mask patterns. This raises the question: Can we enhance MAE performance beyond random masking without relying on input data or incurring additional computational costs? In this work, we introduce a simple yet effective data-independent method, termed ColorMAE, which generates different binary mask patterns by filtering random noise. Drawing inspiration from color noise in image processing, we explore four types of filters to yield mask patterns with different spatial and semantic priors. ColorMAE requires no additional learnable parameters or computational overhead in the network, yet it significantly enhances the learned representations. We provide a comprehensive empirical evaluation, demonstrating our strategy's superiority in downstream tasks compared to random masking. Notably, we report an improvement of 2.72 in mIoU in semantic segmentation tasks relative to baseline MAE implementations.

Masked autoencoders have become popular training paradigms for self-supervised visual representation learning. These models randomly mask a portion of the input and reconstruct the masked portion according to the target representations. In this paper, we first show that a careful choice of the target representation is unnecessary for learning good representations, since different targets tend to derive similarly behaved models. Driven by this observation, we propose a multi-stage masked distillation pipeline and use a randomly initialized model as the teacher, enabling us to effectively train high-capacity models without any efforts to carefully design target representations. Interestingly, we further explore using teachers of larger capacity, obtaining distilled students with remarkable transferring ability. On different tasks of classification, transfer learning, object detection, and semantic segmentation, the proposed method to perform masked knowledge distillation with bootstrapped teachers (dBOT) outperforms previous self-supervised methods by nontrivial margins. We hope our findings, as well as the proposed method, could motivate people to rethink the roles of target representations in pre-training masked autoencoders.The code and pre-trained models are publicly available at https://github.com/liuxingbin/dbot.

We present a novel masked image modeling (MIM) approach, context autoencoder (CAE), for self-supervised representation pretraining. We pretrain an encoder by making predictions in the encoded representation space. The pretraining tasks include two tasks: masked representation prediction - predict the representations for the masked patches, and masked patch reconstruction - reconstruct the masked patches. The network is an encoder-regressor-decoder architecture: the encoder takes the visible patches as input; the regressor predicts the representations of the masked patches, which are expected to be aligned with the representations computed from the encoder, using the representations of visible patches and the positions of visible and masked patches; the decoder reconstructs the masked patches from the predicted encoded representations. The CAE design encourages the separation of learning the encoder (representation) from completing the pertaining tasks: masked representation prediction and masked patch reconstruction tasks, and making predictions in the encoded representation space empirically shows the benefit to representation learning. We demonstrate the effectiveness of our CAE through superior transfer performance in downstream tasks: semantic segmentation, object detection and instance segmentation, and classification. The code will be available at https://github.com/Atten4Vis/CAE.

We present a self-supervised U-Net-based masked autoencoder and noise removal model designed to reconstruct original images. Once adequately trained, this model extracts high-level features, which are then combined with features from the EfficientNet B7 model. These integrated features are subsequently fed into dense layers for classification. Among the approaches of masked input and Gaussian noise removal, we selected the best U-Net reconstruction model. Additionally, we explored various configurations, including EfficientNet with attention, attention fusion of the autoencoder, and classification utilizing U-Net encoder features. The best performance was achieved with EfficientNet B7 combined with U-Net encoder features. We employed the Adam optimizer with a learning rate of 0.0001, achieving a top accuracy of 0.94 on the validation set.

This paper studies a simple extension of image-based Masked Autoencoders (MAE) to self-supervised representation learning from audio spectrograms. Following the Transformer encoder-decoder design in MAE, our Audio-MAE first encodes audio spectrogram patches with a high masking ratio, feeding only the non-masked tokens through encoder layers. The decoder then re-orders and decodes the encoded context padded with mask tokens, in order to reconstruct the input spectrogram. We find it beneficial to incorporate local window attention in the decoder, as audio spectrograms are highly correlated in local time and frequency bands. We then fine-tune the encoder with a lower masking ratio on target datasets. Empirically, Audio-MAE sets new state-of-the-art performance on six audio and speech classification tasks, outperforming other recent models that use external supervised pre-training. The code and models will be at https://github.com/facebookresearch/AudioMAE.

Masked autoencoder (MAE) has attracted unprecedented attention and achieves remarkable performance in many vision tasks. It reconstructs random masked image patches (known as proxy task) during pretraining and learns meaningful semantic representations that can be transferred to downstream tasks. However, MAE has not been thoroughly explored in ultrasound imaging. In this work, we investigate the potential of MAE for ultrasound image recognition. Motivated by the unique property of ultrasound imaging in high noise-to-signal ratio, we propose a novel deblurring MAE approach that incorporates deblurring into the proxy task during pretraining. The addition of deblurring facilitates the pretraining to better recover the subtle details presented in the ultrasound images, thus improving the performance of the downstream classification task. Our experimental results demonstrate the effectiveness of our deblurring MAE, achieving state-of-the-art performance in ultrasound image classification. Overall, our work highlights the potential of MAE for ultrasound image recognition and presents a novel approach that incorporates deblurring to further improve its effectiveness.

Masked Autoencoder (MAE) has demonstrated superior performance on various vision tasks via randomly masking image patches and reconstruction. However, effective data augmentation strategies for MAE still remain open questions, different from those in contrastive learning that serve as the most important part. This paper studies the prevailing mixing augmentation for MAE. We first demonstrate that naive mixing will in contrast degenerate model performance due to the increase of mutual information (MI). To address, we propose homologous recognition, an auxiliary pretext task, not only to alleviate the MI increasement by explicitly requiring each patch to recognize homologous patches, but also to perform object-aware self-supervised pre-training for better downstream dense perception performance. With extensive experiments, we demonstrate that our proposed Mixed Autoencoder (MixedAE) achieves the state-of-the-art transfer results among masked image modeling (MIM) augmentations on different downstream tasks with significant efficiency. Specifically, our MixedAE outperforms MAE by +0.3% accuracy, +1.7 mIoU and +0.9 AP on ImageNet-1K, ADE20K and COCO respectively with a standard ViT-Base. Moreover, MixedAE surpasses iBOT, a strong MIM method combined with instance discrimination, while accelerating training by 2x. To our best knowledge, this is the very first work to consider mixing for MIM from the perspective of pretext task design. Code will be made available.

Masked Autoencoders (MAE) have been prevailing paradigms for large-scale vision representation pre-training. By reconstructing masked image patches from a small portion of visible image regions, MAE forces the model to infer semantic correlation within an image. Recently, some approaches apply semantic-rich teacher models to extract image features as the reconstruction target, leading to better performance. However, unlike the low-level features such as pixel values, we argue the features extracted by powerful teacher models already encode rich semantic correlation across regions in an intact image.This raises one question: is reconstruction necessary in Masked Image Modeling (MIM) with a teacher model? In this paper, we propose an efficient MIM paradigm named MaskAlign. MaskAlign simply learns the consistency of visible patch features extracted by the student model and intact image features extracted by the teacher model. To further advance the performance and tackle the problem of input inconsistency between the student and teacher model, we propose a Dynamic Alignment (DA) module to apply learnable alignment. Our experimental results demonstrate that masked modeling does not lose effectiveness even without reconstruction on masked regions. Combined with Dynamic Alignment, MaskAlign can achieve state-of-the-art performance with much higher efficiency. Code and models will be available at https://github.com/OpenPerceptionX/maskalign.

Masked autoencoding has become a successful pretraining paradigm for Transformer models for text, images, and, recently, point clouds. Raw automotive datasets are suitable candidates for self-supervised pre-training as they generally are cheap to collect compared to annotations for tasks like 3D object detection (OD). However, the development of masked autoencoders for point clouds has focused solely on synthetic and indoor data. Consequently, existing methods have tailored their representations and models toward small and dense point clouds with homogeneous point densities. In this work, we study masked autoencoding for point clouds in an automotive setting, which are sparse and for which the point density can vary drastically among objects in the same scene. To this end, we propose Voxel-MAE, a simple masked autoencoding pre-training scheme designed for voxel representations. We pre-train the backbone of a Transformer-based 3D object detector to reconstruct masked voxels and to distinguish between empty and non-empty voxels. Our method improves the 3D OD performance by 1.75 mAP points and 1.05 NDS on the challenging nuScenes dataset. Further, we show that by pre-training with Voxel-MAE, we require only 40% of the annotated data to outperform a randomly initialized equivalent. Code available at https://github.com/georghess/voxel-mae

This work contributes to breast cancer sub-type classification using histopathological images. We utilize masked autoencoders (MAEs) to learn a self-supervised embedding tailored for computer vision tasks in this domain. This embedding captures informative representations of histopathological data, facilitating feature learning without extensive labeled datasets. During pre-training, we investigate employing a random crop technique to generate a large dataset from WSIs automatically. Additionally, we assess the performance of linear probes for multi-class classification tasks of cancer sub-types using the representations learnt by the MAE. Our approach aims to achieve strong performance on downstream tasks by leveraging the complementary strengths of ViTs and autoencoders. We evaluate our model's performance on the BRACS dataset and compare it with existing benchmarks.

Masked Autoencoders (MAE) have been popular paradigms for large-scale vision representation pre-training. However, MAE solely reconstructs the low-level RGB signals after the decoder and lacks supervision upon high-level semantics for the encoder, thus suffering from sub-optimal learned representations and long pre-training epochs. To alleviate this, previous methods simply replace the pixel reconstruction targets of 75% masked tokens by encoded features from pre-trained image-image (DINO) or image-language (CLIP) contrastive learning. Different from those efforts, we propose to Mimic before Reconstruct for Masked Autoencoders, named as MR-MAE, which jointly learns high-level and low-level representations without interference during pre-training. For high-level semantics, MR-MAE employs a mimic loss over 25% visible tokens from the encoder to capture the pre-trained patterns encoded in CLIP and DINO. For low-level structures, we inherit the reconstruction loss in MAE to predict RGB pixel values for 75% masked tokens after the decoder. As MR-MAE applies high-level and low-level targets respectively at different partitions, the learning conflicts between them can be naturally overcome and contribute to superior visual representations for various downstream tasks. On ImageNet-1K, the MR-MAE base pre-trained for only 400 epochs achieves 85.8% top-1 accuracy after fine-tuning, surpassing the 1600-epoch MAE base by +2.2% and the previous state-of-the-art BEiT V2 base by +0.3%. Code and pre-trained models will be released at https://github.com/Alpha-VL/ConvMAE.

Masked Autoencoder~(MAE) is a prevailing self-supervised learning method that achieves promising results in model pre-training. However, when the various downstream tasks have data distributions different from the pre-training data, the semantically irrelevant pre-training information might result in negative transfer, impeding MAE's scalability. To address this issue, we propose a novel MAE-based pre-training paradigm, Mixture of Cluster-conditional Experts (MoCE), which can be trained once but provides customized pre-training models for diverse downstream tasks. Different from the mixture of experts (MoE), our MoCE trains each expert only with semantically relevant images by using cluster-conditional gates. Thus, each downstream task can be allocated to its customized model pre-trained with data most similar to the downstream data. Experiments on a collection of 11 downstream tasks show that MoCE outperforms the vanilla MAE by 2.45\% on average. It also obtains new state-of-the-art self-supervised learning results on detection and segmentation.

Masked auto-encoder pre-training has emerged as a prevalent technique for initializing and enhancing dense retrieval systems. It generally utilizes additional Transformer decoder blocks to provide sustainable supervision signals and compress contextual information into dense representations. However, the underlying reasons for the effectiveness of such a pre-training technique remain unclear. The usage of additional Transformer-based decoders also incurs significant computational costs. In this study, we aim to shed light on this issue by revealing that masked auto-encoder (MAE) pre-training with enhanced decoding significantly improves the term coverage of input tokens in dense representations, compared to vanilla BERT checkpoints. Building upon this observation, we propose a modification to the traditional MAE by replacing the decoder of a masked auto-encoder with a completely simplified Bag-of-Word prediction task. This modification enables the efficient compression of lexical signals into dense representations through unsupervised pre-training. Remarkably, our proposed method achieves state-of-the-art retrieval performance on several large-scale retrieval benchmarks without requiring any additional parameters, which provides a 67% training speed-up compared to standard masked auto-encoder pre-training with enhanced decoding.

This paper studies a conceptually simple extension of Masked Autoencoders (MAE) to spatiotemporal representation learning from videos. We randomly mask out spacetime patches in videos and learn an autoencoder to reconstruct them in pixels. Interestingly, we show that our MAE method can learn strong representations with almost no inductive bias on spacetime (only except for patch and positional embeddings), and spacetime-agnostic random masking performs the best. We observe that the optimal masking ratio is as high as 90% (vs. 75% on images), supporting the hypothesis that this ratio is related to information redundancy of the data. A high masking ratio leads to a large speedup, e.g., > 4x in wall-clock time or even more. We report competitive results on several challenging video datasets using vanilla Vision Transformers. We observe that MAE can outperform supervised pre-training by large margins. We further report encouraging results of training on real-world, uncurated Instagram data. Our study suggests that the general framework of masked autoencoding (BERT, MAE, etc.) can be a unified methodology for representation learning with minimal domain knowledge.

We propose split-brain autoencoders, a straightforward modification of the traditional autoencoder architecture, for unsupervised representation learning. The method adds a split to the network, resulting in two disjoint sub-networks. Each sub-network is trained to perform a difficult task -- predicting one subset of the data channels from another. Together, the sub-networks extract features from the entire input signal. By forcing the network to solve cross-channel prediction tasks, we induce a representation within the network which transfers well to other, unseen tasks. This method achieves state-of-the-art performance on several large-scale transfer learning benchmarks.

Masked image modeling (MIM) has become a leading self-supervised learning strategy. MIMs such as Masked Autoencoder (MAE) learn strong representations by randomly masking input tokens for the encoder to process, with the decoder reconstructing the masked tokens to the input. However, MIM pre-trained encoders often exhibit a limited attention span, attributed to MIM's sole focus on regressing masked tokens only, which may impede the encoder's broader context learning. To tackle the limitation, we improve MIM by explicitly incorporating unmasked tokens into the training process. Specifically, our method enables the encoder to learn from broader context supervision, allowing unmasked tokens to experience broader contexts while the decoder reconstructs masked tokens. Thus, the encoded unmasked tokens are equipped with extensive contextual information, empowering masked tokens to leverage the enhanced unmasked tokens for MIM. As a result, our simple remedy trains more discriminative representations revealed by achieving 84.2% top-1 accuracy with ViT-B on ImageNet-1K with 0.6%p gain. We attribute the success to the enhanced pre-training method, as evidenced by the singular value spectrum and attention analyses. Finally, our models achieve significant performance gains at the downstream semantic segmentation and fine-grained visual classification tasks; and on diverse robust evaluation metrics. Code is available at https://github.com/naver-ai/lut

As a class of fruitful approaches, diffusion probabilistic models (DPMs) have shown excellent advantages in high-resolution image reconstruction. On the other hand, masked autoencoders (MAEs), as popular self-supervised vision learners, have demonstrated simpler and more effective image reconstruction and transfer capabilities on downstream tasks. However, they all require extremely high training costs, either due to inherent high temporal-dependence (i.e., excessively long diffusion steps) or due to artificially low spatial-dependence (i.e., human-formulated high mask ratio, such as 0.75). To the end, this paper presents LMD, a faster image reconstruction framework with latent masking diffusion. First, we propose to project and reconstruct images in latent space through a pre-trained variational autoencoder, which is theoretically more efficient than in the pixel-based space. Then, we combine the advantages of MAEs and DPMs to design a progressive masking diffusion model, which gradually increases the masking proportion by three different schedulers and reconstructs the latent features from simple to difficult, without sequentially performing denoising diffusion as in DPMs or using fixed high masking ratio as in MAEs, so as to alleviate the high training time-consumption predicament. Our approach allows for learning high-capacity models and accelerate their training (by 3x or more) and barely reduces the original accuracy. Inference speed in downstream tasks also significantly outperforms the previous approaches.

Electromyogenic (EMG) noise is a major contamination source in EEG data that can impede accurate analysis of brain-specific neural activity. Recent literature on EMG artifact removal has moved beyond traditional linear algorithms in favor of machine learning-based systems. However, existing deep learning-based filtration methods often have large compute footprints and prohibitively long training times. In this study, we present a new machine learning-based system for filtering EMG interference from EEG data using an autoencoder-targeted adversarial transformer (AT-AT). By leveraging the lightweight expressivity of an autoencoder to determine optimal time-series transformer application sites, our AT-AT architecture achieves a >90% model size reduction compared to published artifact removal models. The addition of adversarial training ensures that filtered signals adhere to the fundamental characteristics of EEG data. We trained AT-AT using published neural data from 67 subjects and found that the system was able to achieve comparable test performance to larger models; AT-AT posted a mean reconstructive correlation coefficient above 0.95 at an initial signal-to-noise ratio (SNR) of 2 dB and 0.70 at -7 dB SNR. Further research generalizing these results to broader sample sizes beyond these isolated test cases will be crucial; while outside the scope of this study, we also include results from a real-world deployment of AT-AT in the Appendix.

In this work, we propose a Multi-Window Masked Autoencoder (MW-MAE) fitted with a novel Multi-Window Multi-Head Attention (MW-MHA) module that facilitates the modelling of local-global interactions in every decoder transformer block through attention heads of several distinct local and global windows. Empirical results on ten downstream audio tasks show that MW-MAEs consistently outperform standard MAEs in overall performance and learn better general-purpose audio representations, along with demonstrating considerably better scaling characteristics. Investigating attention distances and entropies reveals that MW-MAE encoders learn heads with broader local and global attention. Analyzing attention head feature representations through Projection Weighted Canonical Correlation Analysis (PWCCA) shows that attention heads with the same window sizes across the decoder layers of the MW-MAE learn correlated feature representations which enables each block to independently capture local and global information, leading to a decoupled decoder feature hierarchy. Code for feature extraction and downstream experiments along with pre-trained models will be released publically.

As a promising scheme of self-supervised learning, masked autoencoding has significantly advanced natural language processing and computer vision. Inspired by this, we propose a neat scheme of masked autoencoders for point cloud self-supervised learning, addressing the challenges posed by point cloud's properties, including leakage of location information and uneven information density. Concretely, we divide the input point cloud into irregular point patches and randomly mask them at a high ratio. Then, a standard Transformer based autoencoder, with an asymmetric design and a shifting mask tokens operation, learns high-level latent features from unmasked point patches, aiming to reconstruct the masked point patches. Extensive experiments show that our approach is efficient during pre-training and generalizes well on various downstream tasks. Specifically, our pre-trained models achieve 85.18% accuracy on ScanObjectNN and 94.04% accuracy on ModelNet40, outperforming all the other self-supervised learning methods. We show with our scheme, a simple architecture entirely based on standard Transformers can surpass dedicated Transformer models from supervised learning. Our approach also advances state-of-the-art accuracies by 1.5%-2.3% in the few-shot object classification. Furthermore, our work inspires the feasibility of applying unified architectures from languages and images to the point cloud.

At the core of both successful generative and self-supervised representation learning models there is a reconstruction objective that incorporates some form of image corruption. Diffusion models implement this approach through a scheduled Gaussian corruption process, while masked auto-encoder models do so by masking patches of the image. Despite their different approaches, the underlying similarity in their methodologies suggests a promising avenue for an auto-encoder capable of both de-noising tasks. We propose a unified self-supervised objective, dubbed Unified Masked Diffusion (UMD), that combines patch-based and noise-based corruption techniques within a single auto-encoding framework. Specifically, UMD modifies the diffusion transformer (DiT) training process by introducing an additional noise-free, high masking representation step in the diffusion noising schedule, and utilizes a mixed masked and noised image for subsequent timesteps. By integrating features useful for diffusion modeling and for predicting masked patch tokens, UMD achieves strong performance in downstream generative and representation learning tasks, including linear probing and class-conditional generation. This is achieved without the need for heavy data augmentations, multiple views, or additional encoders. Furthermore, UMD improves over the computational efficiency of prior diffusion based methods in total training time. We release our code at https://github.com/philippe-eecs/small-vision.

The computer vision domain has greatly benefited from an abundance of data across many modalities to improve on various visual tasks. Recently, there has been a lot of focus on self-supervised pre-training methods through Masked Autoencoders (MAE) he2022masked,bachmann2022multimae, usually used as a first step before optimizing for a downstream task, such as classification or regression. This is very useful as it doesn't require any manually labeled data. In this work, we introduce Probabilistic Hyper-Graphs using Masked Autoencoders (PHG-MAE): a novel model that unifies the classical work on neural graphs leordeanu2021semi with the modern approach of masked autoencoders under a common theoretical framework. Through random masking of entire modalities, not just patches, the model samples from the distribution of hyper-edges on each forward pass. Additionally, the model adapts the standard MAE algorithm by combining pre-training and fine-tuning into a single training loop. Moreover, our approach enables the creation of inference-time ensembles which, through aggregation, boost the final prediction performance and consistency. Lastly, we show that we can apply knowledge distillation on top of the ensembles with little loss in performance, even with models that have fewer than 1M parameters. While our work mostly focuses on outdoor UAV scenes that contain multiple world interpretations and modalities, the same steps can be followed in other similar domains, such as autonomous driving or indoor robotics. In order to streamline the process of integrating external pre-trained experts for computer vision multi-modal multi-task learning (MTL) scenarios, we developed a data-pipeline software. Using this tool, we have created and released a fully-automated extension of the Dronescapes dataset. All the technical details, code and reproduction steps are publicly released.

Masked Autoencoders (MAEs) learn generalizable representations for image, text, audio, video, etc., by reconstructing masked input data from tokens of the visible data. Current MAE approaches for videos rely on random patch, tube, or frame-based masking strategies to select these tokens. This paper proposes AdaMAE, an adaptive masking strategy for MAEs that is end-to-end trainable. Our adaptive masking strategy samples visible tokens based on the semantic context using an auxiliary sampling network. This network estimates a categorical distribution over spacetime-patch tokens. The tokens that increase the expected reconstruction error are rewarded and selected as visible tokens, motivated by the policy gradient algorithm in reinforcement learning. We show that AdaMAE samples more tokens from the high spatiotemporal information regions, thereby allowing us to mask 95% of tokens, resulting in lower memory requirements and faster pre-training. We conduct ablation studies on the Something-Something v2 (SSv2) dataset to demonstrate the efficacy of our adaptive sampling approach and report state-of-the-art results of 70.0% and 81.7% in top-1 accuracy on SSv2 and Kinetics-400 action classification datasets with a ViT-Base backbone and 800 pre-training epochs.

Medical vision-and-language pre-training provides a feasible solution to extract effective vision-and-language representations from medical images and texts. However, few studies have been dedicated to this field to facilitate medical vision-and-language understanding. In this paper, we propose a self-supervised learning paradigm with multi-modal masked autoencoders (M^3AE), which learn cross-modal domain knowledge by reconstructing missing pixels and tokens from randomly masked images and texts. There are three key designs to make this simple approach work. First, considering the different information densities of vision and language, we adopt different masking ratios for the input image and text, where a considerably larger masking ratio is used for images. Second, we use visual and textual features from different layers to perform the reconstruction to deal with different levels of abstraction in visual and language. Third, we develop different designs for vision and language decoders (i.e., a Transformer for vision and a multi-layer perceptron for language). To perform a comprehensive evaluation and facilitate further research, we construct a medical vision-and-language benchmark including three tasks. Experimental results demonstrate the effectiveness of our approach, where state-of-the-art results are achieved on all downstream tasks. Besides, we conduct further analysis to better verify the effectiveness of different components of our approach and various settings of pre-training. The source code is available at~https://github.com/zhjohnchan/M3AE.

In this work, we re-examine inter-patch dependencies in the decoding mechanism of masked autoencoders (MAE). We decompose this decoding mechanism for masked patch reconstruction in MAE into self-attention and cross-attention. Our investigations suggest that self-attention between mask patches is not essential for learning good representations. To this end, we propose a novel pretraining framework: Cross-Attention Masked Autoencoders (CrossMAE). CrossMAE's decoder leverages only cross-attention between masked and visible tokens, with no degradation in downstream performance. This design also enables decoding only a small subset of mask tokens, boosting efficiency. Furthermore, each decoder block can now leverage different encoder features, resulting in improved representation learning. CrossMAE matches MAE in performance with 2.5 to 3.7times less decoding compute. It also surpasses MAE on ImageNet classification and COCO instance segmentation under the same compute. Code and models: https://crossmae.github.io

There has been a longstanding belief that generation can facilitate a true understanding of visual data. In line with this, we revisit generatively pre-training visual representations in light of recent interest in denoising diffusion models. While directly pre-training with diffusion models does not produce strong representations, we condition diffusion models on masked input and formulate diffusion models as masked autoencoders (DiffMAE). Our approach is capable of (i) serving as a strong initialization for downstream recognition tasks, (ii) conducting high-quality image inpainting, and (iii) being effortlessly extended to video where it produces state-of-the-art classification accuracy. We further perform a comprehensive study on the pros and cons of design choices and build connections between diffusion models and masked autoencoders.

In spite of the remarkable potential of Latent Diffusion Models (LDMs) in image generation, the desired properties and optimal design of the autoencoders have been underexplored. In this work, we analyze the role of autoencoders in LDMs and identify three key properties: latent smoothness, perceptual compression quality, and reconstruction quality. We demonstrate that existing autoencoders fail to simultaneously satisfy all three properties, and propose Variational Masked AutoEncoders (VMAEs), taking advantage of the hierarchical features maintained by Masked AutoEncoders. We integrate VMAEs into the LDM framework, introducing Latent Diffusion Models with Masked AutoEncoders (LDMAEs). Our code is available at https://github.com/isno0907/ldmae.

The development of foundation models for functional magnetic resonance imaging (fMRI) time series holds significant promise for predicting phenotypes related to disease and cognition. Current models, however, are often trained using a mask-and-reconstruct objective on small brain regions. This focus on low-level information leads to representations that are sensitive to noise and temporal fluctuations, necessitating extensive fine-tuning for downstream tasks. We introduce Brain-Semantoks, a self-supervised framework designed specifically to learn abstract representations of brain dynamics. Its architecture is built on two core innovations: a semantic tokenizer that aggregates noisy regional signals into robust tokens representing functional networks, and a self-distillation objective that enforces representational stability across time. We show that this objective is stabilized through a novel training curriculum, ensuring the model robustly learns meaningful features from low signal-to-noise time series. We demonstrate that learned representations enable strong performance on a variety of downstream tasks even when only using a linear probe. Furthermore, we provide comprehensive scaling analyses indicating more unlabeled data reliably results in out-of-distribution performance gains without domain adaptation.

Modern learning frameworks often train deep neural networks with massive amounts of unlabeled data to learn representations by solving simple pretext tasks, then use the representations as foundations for downstream tasks. These networks are empirically designed; as such, they are usually not interpretable, their representations are not structured, and their designs are potentially redundant. White-box deep networks, in which each layer explicitly identifies and transforms structures in the data, present a promising alternative. However, existing white-box architectures have only been shown to work at scale in supervised settings with labeled data, such as classification. In this work, we provide the first instantiation of the white-box design paradigm that can be applied to large-scale unsupervised representation learning. We do this by exploiting a fundamental connection between diffusion, compression, and (masked) completion, deriving a deep transformer-like masked autoencoder architecture, called CRATE-MAE, in which the role of each layer is mathematically fully interpretable: they transform the data distribution to and from a structured representation. Extensive empirical evaluations confirm our analytical insights. CRATE-MAE demonstrates highly promising performance on large-scale imagery datasets while using only ~30% of the parameters compared to the standard masked autoencoder with the same model configuration. The representations learned by CRATE-MAE have explicit structure and also contain semantic meaning. Code is available at https://github.com/Ma-Lab-Berkeley/CRATE .

Recently, various studies have been directed towards exploring dense passage retrieval techniques employing pre-trained language models, among which the masked auto-encoder (MAE) pre-training architecture has emerged as the most promising. The conventional MAE framework relies on leveraging the passage reconstruction of decoder to bolster the text representation ability of encoder, thereby enhancing the performance of resulting dense retrieval systems. Within the context of building the representation ability of the encoder through passage reconstruction of decoder, it is reasonable to postulate that a ``more demanding'' decoder will necessitate a corresponding increase in the encoder's ability. To this end, we propose a novel token importance aware masking strategy based on pointwise mutual information to intensify the challenge of the decoder. Importantly, our approach can be implemented in an unsupervised manner, without adding additional expenses to the pre-training phase. Our experiments verify that the proposed method is both effective and robust on large-scale supervised passage retrieval datasets and out-of-domain zero-shot retrieval benchmarks.

Intracranial recordings have opened a unique opportunity to simultaneously measure activity across multiregional networks in the human brain. Recent works have focused on developing transformer-based neurofoundation models of such recordings that can generalize across subjects and datasets. However, these recordings exhibit highly complex spatiotemporal interactions across diverse spatial scales, from the single-channel scale to the scale of brain regions. As such, there remain critical open questions regarding how best to encode spatial information and how to design self-supervision tasks that enable the learning of brain network patterns and enhance downstream decoding performance using such high-dimensional, multiregional recordings. To allow for exploring these questions, we propose a new spatiotemporal transformer model of multiregional neural activity and a corresponding self-supervised masked latent reconstruction task, designed to enable flexibility in the spatial scale used for token encoding and masking. Applying this model on publicly available multiregional intracranial electrophysiology (iEEG) data, we demonstrate that adjusting the spatial scale for both token encoding and masked reconstruction significantly impacts downstream decoding. Further, we find that spatial encoding at larger scales than channel-level encoding, which is commonly used in existing iEEG transformer models, improves downstream decoding performance. Finally, we demonstrate that our method allows for region-level token encoding while also maintaining accurate channel-level neural reconstruction. Taken together, our modeling framework enables exploration of the spatial scales used for token encoding and masking, reveals their importance towards self-supervised pretraining of neurofoundation models of multiregional human brain activity, and enhances downstream decoding performance.

Autoencoder networks are unsupervised approaches aiming at combining generative and representational properties by learning simultaneously an encoder-generator map. Although studied extensively, the issues of whether they have the same generative power of GANs, or learn disentangled representations, have not been fully addressed. We introduce an autoencoder that tackles these issues jointly, which we call Adversarial Latent Autoencoder (ALAE). It is a general architecture that can leverage recent improvements on GAN training procedures. We designed two autoencoders: one based on a MLP encoder, and another based on a StyleGAN generator, which we call StyleALAE. We verify the disentanglement properties of both architectures. We show that StyleALAE can not only generate 1024x1024 face images with comparable quality of StyleGAN, but at the same resolution can also produce face reconstructions and manipulations based on real images. This makes ALAE the first autoencoder able to compare with, and go beyond the capabilities of a generator-only type of architecture.

Masked autoencoding has shown excellent performance on self-supervised video representation learning. Temporal redundancy has led to a high masking ratio and customized masking strategy in VideoMAE. In this paper, we aim to further improve the performance of video masked autoencoding by introducing a motion guided masking strategy. Our key insight is that motion is a general and unique prior in video, which should be taken into account during masked pre-training. Our motion guided masking explicitly incorporates motion information to build temporal consistent masking volume. Based on this masking volume, we can track the unmasked tokens in time and sample a set of temporal consistent cubes from videos. These temporal aligned unmasked tokens will further relieve the information leakage issue in time and encourage the MGMAE to learn more useful structure information. We implement our MGMAE with an online efficient optical flow estimator and backward masking map warping strategy. We perform experiments on the datasets of Something-Something V2 and Kinetics-400, demonstrating the superior performance of our MGMAE to the original VideoMAE. In addition, we provide the visualization analysis to illustrate that our MGMAE can sample temporal consistent cubes in a motion-adaptive manner for more effective video pre-training.

In neural decoding research, one of the most intriguing topics is the reconstruction of perceived natural images based on fMRI signals. Previous studies have succeeded in re-creating different aspects of the visuals, such as low-level properties (shape, texture, layout) or high-level features (category of objects, descriptive semantics of scenes) but have typically failed to reconstruct these properties together for complex scene images. Generative AI has recently made a leap forward with latent diffusion models capable of generating high-complexity images. Here, we investigate how to take advantage of this innovative technology for brain decoding. We present a two-stage scene reconstruction framework called ``Brain-Diffuser''. In the first stage, starting from fMRI signals, we reconstruct images that capture low-level properties and overall layout using a VDVAE (Very Deep Variational Autoencoder) model. In the second stage, we use the image-to-image framework of a latent diffusion model (Versatile Diffusion) conditioned on predicted multimodal (text and visual) features, to generate final reconstructed images. On the publicly available Natural Scenes Dataset benchmark, our method outperforms previous models both qualitatively and quantitatively. When applied to synthetic fMRI patterns generated from individual ROI (region-of-interest) masks, our trained model creates compelling ``ROI-optimal'' scenes consistent with neuroscientific knowledge. Thus, the proposed methodology can have an impact on both applied (e.g. brain-computer interface) and fundamental neuroscience.

We create a reusable Transformer, BrainBERT, for intracranial recordings bringing modern representation learning approaches to neuroscience. Much like in NLP and speech recognition, this Transformer enables classifying complex concepts, i.e., decoding neural data, with higher accuracy and with much less data by being pretrained in an unsupervised manner on a large corpus of unannotated neural recordings. Our approach generalizes to new subjects with electrodes in new positions and to unrelated tasks showing that the representations robustly disentangle the neural signal. Just like in NLP where one can study language by investigating what a language model learns, this approach opens the door to investigating the brain by what a model of the brain learns. As a first step along this path, we demonstrate a new analysis of the intrinsic dimensionality of the computations in different areas of the brain. To construct these representations, we combine a technique for producing super-resolution spectrograms of neural data with an approach designed for generating contextual representations of audio by masking. In the future, far more concepts will be decodable from neural recordings by using representation learning, potentially unlocking the brain like language models unlocked language.

Current video-based Masked Autoencoders (MAEs) primarily focus on learning effective spatiotemporal representations from a visual perspective, which may lead the model to prioritize general spatial-temporal patterns but often overlook nuanced semantic attributes like specific interactions or sequences that define actions - such as action-specific features that align more closely with human cognition for space-time correspondence. This can limit the model's ability to capture the essence of certain actions that are contextually rich and continuous. Humans are capable of mapping visual concepts, object view invariance, and semantic attributes available in static instances to comprehend natural dynamic scenes or videos. Existing MAEs for videos and static images rely on separate datasets for videos and images, which may lack the rich semantic attributes necessary for fully understanding the learned concepts, especially when compared to using video and corresponding sampled frame images together. To this end, we propose CrossVideoMAE an end-to-end self-supervised cross-modal contrastive learning MAE that effectively learns both video-level and frame-level rich spatiotemporal representations and semantic attributes. Our method integrates mutual spatiotemporal information from videos with spatial information from sampled frames within a feature-invariant space, while encouraging invariance to augmentations within the video domain. This objective is achieved through jointly embedding features of visible tokens and combining feature correspondence within and across modalities, which is critical for acquiring rich, label-free guiding signals from both video and frame image modalities in a self-supervised manner. Extensive experiments demonstrate that our approach surpasses previous state-of-the-art methods and ablation studies validate the effectiveness of our approach.

Can we leverage the audiovisual information already present in video to improve self-supervised representation learning? To answer this question, we study various pretraining architectures and objectives within the masked autoencoding framework, motivated by the success of similar methods in natural language and image understanding. We show that we can achieve significant improvements on audiovisual downstream classification tasks, surpassing the state-of-the-art on VGGSound and AudioSet. Furthermore, we can leverage our audiovisual pretraining scheme for multiple unimodal downstream tasks using a single audiovisual pretrained model. We additionally demonstrate the transferability of our representations, achieving state-of-the-art audiovisual results on Epic Kitchens without pretraining specifically for this dataset.

Electroencephalography (EEG) captures neural activity across multiple temporal and spectral scales, yielding signals that are rich but complex for representation learning. Recently, EEG foundation models trained to predict masked signal-tokens have shown promise for learning generalizable representations. However, their performance is hindered by their signal tokenization modules. Existing neural tokenizers fail to preserve high-frequency dynamics, limiting their ability to reconstruct EEG signals with high fidelity. We introduce NeuroRVQ, a scalable Large Brainwave Model (LBM) centered on a codebook-based tokenizer. Our tokenizer integrates: (i) multi-scale feature extraction modules that capture the full frequency neural spectrum; (ii) hierarchical residual vector quantization (RVQ) codebooks for high-resolution encoding; and, (iii) an EEG signal phase- and amplitude-aware loss function for efficient training. This design enables efficient EEG compression while supporting accurate reconstruction across all frequency bands, leading to robust generative masked modeling. Our empirical results demonstrate that NeuroRVQ achieves lower reconstruction error and outperforms existing LBMs on a variety of downstream tasks. More broadly, NeuroRVQ tokenizer establishes a strong prior for codebook-based general-purpose brainwave models, enabling advances in neural decoding, generative modeling and multimodal biosignal integration.

Scale is the primary factor for building a powerful foundation model that could well generalize to a variety of downstream tasks. However, it is still challenging to train video foundation models with billions of parameters. This paper shows that video masked autoencoder (VideoMAE) is a scalable and general self-supervised pre-trainer for building video foundation models. We scale the VideoMAE in both model and data with a core design. Specifically, we present a dual masking strategy for efficient pre-training, with an encoder operating on a subset of video tokens and a decoder processing another subset of video tokens. Although VideoMAE is very efficient due to high masking ratio in encoder, masking decoder can still further reduce the overall computational cost. This enables the efficient pre-training of billion-level models in video. We also use a progressive training paradigm that involves an initial pre-training on a diverse multi-sourced unlabeled dataset, followed by a post-pre-training on a mixed labeled dataset. Finally, we successfully train a video ViT model with a billion parameters, which achieves a new state-of-the-art performance on the datasets of Kinetics (90.0% on K400 and 89.9% on K600) and Something-Something (68.7% on V1 and 77.0% on V2). In addition, we extensively verify the pre-trained video ViT models on a variety of downstream tasks, demonstrating its effectiveness as a general video representation learner. The code and model is available at https://github.com/OpenGVLab/VideoMAEv2.

Pre-training video transformers on extra large-scale datasets is generally required to achieve premier performance on relatively small datasets. In this paper, we show that video masked autoencoders (VideoMAE) are data-efficient learners for self-supervised video pre-training (SSVP). We are inspired by the recent ImageMAE and propose customized video tube masking with an extremely high ratio. This simple design makes video reconstruction a more challenging self-supervision task, thus encouraging extracting more effective video representations during this pre-training process. We obtain three important findings on SSVP: (1) An extremely high proportion of masking ratio (i.e., 90% to 95%) still yields favorable performance of VideoMAE. The temporally redundant video content enables a higher masking ratio than that of images. (2) VideoMAE achieves impressive results on very small datasets (i.e., around 3k-4k videos) without using any extra data. (3) VideoMAE shows that data quality is more important than data quantity for SSVP. Domain shift between pre-training and target datasets is an important issue. Notably, our VideoMAE with the vanilla ViT can achieve 87.4% on Kinetics-400, 75.4% on Something-Something V2, 91.3% on UCF101, and 62.6% on HMDB51, without using any extra data. Code is available at https://github.com/MCG-NJU/VideoMAE.

Pre-training by numerous image data has become de-facto for robust 2D representations. In contrast, due to the expensive data acquisition and annotation, a paucity of large-scale 3D datasets severely hinders the learning for high-quality 3D features. In this paper, we propose an alternative to obtain superior 3D representations from 2D pre-trained models via Image-to-Point Masked Autoencoders, named as I2P-MAE. By self-supervised pre-training, we leverage the well learned 2D knowledge to guide 3D masked autoencoding, which reconstructs the masked point tokens with an encoder-decoder architecture. Specifically, we first utilize off-the-shelf 2D models to extract the multi-view visual features of the input point cloud, and then conduct two types of image-to-point learning schemes on top. For one, we introduce a 2D-guided masking strategy that maintains semantically important point tokens to be visible for the encoder. Compared to random masking, the network can better concentrate on significant 3D structures and recover the masked tokens from key spatial cues. For another, we enforce these visible tokens to reconstruct the corresponding multi-view 2D features after the decoder. This enables the network to effectively inherit high-level 2D semantics learned from rich image data for discriminative 3D modeling. Aided by our image-to-point pre-training, the frozen I2P-MAE, without any fine-tuning, achieves 93.4% accuracy for linear SVM on ModelNet40, competitive to the fully trained results of existing methods. By further fine-tuning on on ScanObjectNN's hardest split, I2P-MAE attains the state-of-the-art 90.11% accuracy, +3.68% to the second-best, demonstrating superior transferable capacity. Code will be available at https://github.com/ZrrSkywalker/I2P-MAE.

Transformer-based models have delivered impressive results on many tasks, particularly vision and language tasks. In many model training situations, conventional configurations are typically adopted. For example, we often set the base model with hidden dimensions (i.e. model width) to be 768 and the number of transformer layers (i.e. model depth) to be 12. In this paper, we revisit these conventional configurations. Through theoretical analysis and experimental evaluation, we show that the masked autoencoder is effective in alleviating the over-smoothing issue in deep transformer training. Based on this finding, we propose Bamboo, an idea of using deeper and narrower transformer configurations, for masked autoencoder training. On ImageNet, with such a simple change in configuration, re-designed model achieves 87.1% top-1 accuracy and outperforms SoTA models like MAE and BEiT. On language tasks, re-designed model outperforms BERT with default setting by 1.1 points on average, on GLUE datasets.

Masked autoencoders (MAE) have recently been introduced to 3D self-supervised pretraining for point clouds due to their great success in NLP and computer vision. Unlike MAEs used in the image domain, where the pretext task is to restore features at the masked pixels, such as colors, the existing 3D MAE works reconstruct the missing geometry only, i.e, the location of the masked points. In contrast to previous studies, we advocate that point location recovery is inessential and restoring intrinsic point features is much superior. To this end, we propose to ignore point position reconstruction and recover high-order features at masked points including surface normals and surface variations, through a novel attention-based decoder which is independent of the encoder design. We validate the effectiveness of our pretext task and decoder design using different encoder structures for 3D training and demonstrate the advantages of our pretrained networks on various point cloud analysis tasks.

Recently, it has been observed that when representations are learnt in a way that encourages sparsity, improved performance is obtained on classification tasks. These methods involve combinations of activation functions, sampling steps and different kinds of penalties. To investigate the effectiveness of sparsity by itself, we propose the k-sparse autoencoder, which is an autoencoder with linear activation function, where in hidden layers only the k highest activities are kept. When applied to the MNIST and NORB datasets, we find that this method achieves better classification results than denoising autoencoders, networks trained with dropout, and RBMs. k-sparse autoencoders are simple to train and the encoding stage is very fast, making them well-suited to large problem sizes, where conventional sparse coding algorithms cannot be applied.

Recent advances in latent diffusion models have demonstrated their effectiveness for high-resolution image synthesis. However, the properties of the latent space from tokenizer for better learning and generation of diffusion models remain under-explored. Theoretically and empirically, we find that improved generation quality is closely tied to the latent distributions with better structure, such as the ones with fewer Gaussian Mixture modes and more discriminative features. Motivated by these insights, we propose MAETok, an autoencoder (AE) leveraging mask modeling to learn semantically rich latent space while maintaining reconstruction fidelity. Extensive experiments validate our analysis, demonstrating that the variational form of autoencoders is not necessary, and a discriminative latent space from AE alone enables state-of-the-art performance on ImageNet generation using only 128 tokens. MAETok achieves significant practical improvements, enabling a gFID of 1.69 with 76x faster training and 31x higher inference throughput for 512x512 generation. Our findings show that the structure of the latent space, rather than variational constraints, is crucial for effective diffusion models. Code and trained models are released.

Masked autoencoders (MAEs) are increasingly applied to electronic health records (EHR) for learning general-purpose representations that support diverse clinical tasks. However, existing approaches typically rely on uniform random masking, implicitly assuming all features are equally predictable. In reality, laboratory tests exhibit substantial heterogeneity in volatility: some biomarkers (e.g., sodium) remain stable, while others (e.g., lactate) fluctuate considerably and are more difficult to model. Clinically, volatile biomarkers often signal acute pathophysiology and require more sophisticated modeling to capture their complex temporal patterns. We propose a volatility-aware pretraining strategy, Coefficient of Variation Masking (CV-Masking), that adaptively adjusts masking probabilities according to the intrinsic variability of each feature. Combined with a value-only masking objective aligned with clinical workflows, CV-Masking yields systematic improvements over random and variance-based strategies. Experiments on a large panel of laboratory tests show that CV-Masking enhances reconstruction, improves downstream predictive performance, and accelerates convergence, producing more robust and clinically meaningful EHR representations.

Several recent works have directly extended the image masked autoencoder (MAE) with random masking into video domain, achieving promising results. However, unlike images, both spatial and temporal information are important for video understanding. This suggests that the random masking strategy that is inherited from the image MAE is less effective for video MAE. This motivates the design of a novel masking algorithm that can more efficiently make use of video saliency. Specifically, we propose a motion-guided masking algorithm (MGM) which leverages motion vectors to guide the position of each mask over time. Crucially, these motion-based correspondences can be directly obtained from information stored in the compressed format of the video, which makes our method efficient and scalable. On two challenging large-scale video benchmarks (Kinetics-400 and Something-Something V2), we equip video MAE with our MGM and achieve up to +1.3% improvement compared to previous state-of-the-art methods. Additionally, our MGM achieves equivalent performance to previous video MAE using up to 66% fewer training epochs. Lastly, we show that MGM generalizes better to downstream transfer learning and domain adaptation tasks on the UCF101, HMDB51, and Diving48 datasets, achieving up to +4.9% improvement compared to baseline methods.

Prior work using Masked Autoencoders (MAEs) typically relies on random patch masking based on the assumption that images have significant redundancies across different channels, allowing for the reconstruction of masked content using cross-channel correlations. However, this assumption does not hold in Multi-Channel Imaging (MCI), where channels may provide complementary information with minimal feature overlap. Thus, these MAEs primarily learn local structures within individual channels from patch reconstruction, failing to fully leverage cross-channel interactions and limiting their MCI effectiveness. In this paper, we present ChA-MAEViT, an MAE-based method that enhances feature learning across MCI channels via four key strategies: (1) dynamic channel-patch masking, which compels the model to reconstruct missing channels in addition to masked patches, thereby enhancing cross-channel dependencies and improving robustness to varying channel configurations; (2) memory tokens, which serve as long-term memory aids to promote information sharing across channels, addressing the challenges of reconstructing structurally diverse channels; (3) hybrid token fusion module, which merges fine-grained patch tokens with a global class token to capture richer representations; and (4) Channel-Aware Decoder, a lightweight decoder utilizes channel tokens to effectively reconstruct image patches. Experiments on satellite and microscopy datasets, CHAMMI, JUMP-CP, and So2Sat, show that ChA-MAEViT significantly outperforms state-of-the-art MCI-ViTs by 3.0-21.5%, highlighting the importance of cross-channel interactions in MCI. Our code is publicly available at https://github.com/chaudatascience/cha_mae_vit.

In this paper, we first extend the recent Masked Auto-Encoder (MAE) model from a single modality to audio-visual multi-modalities. Subsequently, we propose the Contrastive Audio-Visual Masked Auto-Encoder (CAV-MAE) by combining contrastive learning and masked data modeling, two major self-supervised learning frameworks, to learn a joint and coordinated audio-visual representation. Our experiments show that the contrastive audio-visual correspondence learning objective not only enables the model to perform audio-visual retrieval tasks, but also helps the model learn a better joint representation. As a result, our fully self-supervised pretrained CAV-MAE achieves a new SOTA accuracy of 65.9% on VGGSound, and is comparable with the previous best supervised pretrained model on AudioSet in the audio-visual event classification task. Code and pretrained models are at https://github.com/yuangongnd/cav-mae.

This paper studies the potential of distilling knowledge from pre-trained models, especially Masked Autoencoders. Our approach is simple: in addition to optimizing the pixel reconstruction loss on masked inputs, we minimize the distance between the intermediate feature map of the teacher model and that of the student model. This design leads to a computationally efficient knowledge distillation framework, given 1) only a small visible subset of patches is used, and 2) the (cumbersome) teacher model only needs to be partially executed, ie, forward propagate inputs through the first few layers, for obtaining intermediate feature maps. Compared to directly distilling fine-tuned models, distilling pre-trained models substantially improves downstream performance. For example, by distilling the knowledge from an MAE pre-trained ViT-L into a ViT-B, our method achieves 84.0% ImageNet top-1 accuracy, outperforming the baseline of directly distilling a fine-tuned ViT-L by 1.2%. More intriguingly, our method can robustly distill knowledge from teacher models even with extremely high masking ratios: e.g., with 95% masking ratio where merely TEN patches are visible during distillation, our ViT-B competitively attains a top-1 ImageNet accuracy of 83.6%; surprisingly, it can still secure 82.4% top-1 ImageNet accuracy by aggressively training with just FOUR visible patches (98% masking ratio). The code and models are publicly available at https://github.com/UCSC-VLAA/DMAE.

Unsupervised anomaly detection in brain images is crucial for identifying injuries and pathologies without access to labels. However, the accurate localization of anomalies in medical images remains challenging due to the inherent complexity and variability of brain structures and the scarcity of annotated abnormal data. To address this challenge, we propose a novel approach that incorporates masking within diffusion models, leveraging their generative capabilities to learn robust representations of normal brain anatomy. During training, our model processes only normal brain MRI scans and performs a forward diffusion process in the latent space that adds noise to the features of randomly-selected patches. Following a dual objective, the model learns to identify which patches are noisy and recover their original features. This strategy ensures that the model captures intricate patterns of normal brain structures while isolating potential anomalies as noise in the latent space. At inference, the model identifies noisy patches corresponding to anomalies and generates a normal counterpart for these patches by applying a reverse diffusion process. Our method surpasses existing unsupervised anomaly detection techniques, demonstrating superior performance in generating accurate normal counterparts and localizing anomalies. The code is available at hhttps://github.com/farzad-bz/MAD-AD.

Self-supervised learning excels in learning representations from large amounts of unlabeled data, demonstrating success across multiple data modalities. Yet, extending self-supervised learning to new modalities is non-trivial because the specifics of existing methods are tailored to each domain, such as domain-specific augmentations which reflect the invariances in the target task. While masked modeling is promising as a domain-agnostic framework for self-supervised learning because it does not rely on input augmentations, its mask sampling procedure remains domain-specific. We present Self-guided Masked Autoencoders (SMA), a fully domain-agnostic masked modeling method. SMA trains an attention based model using a masked modeling objective, by learning masks to sample without any domain-specific assumptions. We evaluate SMA on three self-supervised learning benchmarks in protein biology, chemical property prediction, and particle physics. We find SMA is capable of learning representations without domain-specific knowledge and achieves state-of-the-art performance on these three benchmarks.

Visual generative models (e.g., diffusion models) typically operate in compressed latent spaces to balance training efficiency and sample quality. In parallel, there has been growing interest in leveraging high-quality pre-trained visual representations, either by aligning them inside VAEs or directly within the generative model. However, adapting such representations remains challenging due to fundamental mismatches between understanding-oriented features and generation-friendly latent spaces. Representation encoders benefit from high-dimensional latents that capture diverse hypotheses for masked regions, whereas generative models favor low-dimensional latents that must faithfully preserve injected noise. This discrepancy has led prior work to rely on complex objectives and architectures. In this work, we propose FAE (Feature Auto-Encoder), a simple yet effective framework that adapts pre-trained visual representations into low-dimensional latents suitable for generation using as little as a single attention layer, while retaining sufficient information for both reconstruction and understanding. The key is to couple two separate deep decoders: one trained to reconstruct the original feature space, and a second that takes the reconstructed features as input for image generation. FAE is generic; it can be instantiated with a variety of self-supervised encoders (e.g., DINO, SigLIP) and plugged into two distinct generative families: diffusion models and normalizing flows. Across class-conditional and text-to-image benchmarks, FAE achieves strong performance. For example, on ImageNet 256x256, our diffusion model with CFG attains a near state-of-the-art FID of 1.29 (800 epochs) and 1.70 (80 epochs). Without CFG, FAE reaches the state-of-the-art FID of 1.48 (800 epochs) and 2.08 (80 epochs), demonstrating both high quality and fast learning.

Class Incremental Learning (CIL) aims to sequentially learn new classes while avoiding catastrophic forgetting of previous knowledge. We propose to use Masked Autoencoders (MAEs) as efficient learners for CIL. MAEs were originally designed to learn useful representations through reconstructive unsupervised learning, and they can be easily integrated with a supervised loss for classification. Moreover, MAEs can reliably reconstruct original input images from randomly selected patches, which we use to store exemplars from past tasks more efficiently for CIL. We also propose a bilateral MAE framework to learn from image-level and embedding-level fusion, which produces better-quality reconstructed images and more stable representations. Our experiments confirm that our approach performs better than the state-of-the-art on CIFAR-100, ImageNet-Subset, and ImageNet-Full. The code is available at https://github.com/scok30/MAE-CIL .

We propose a pre-training strategy called Multi-modal Multi-task Masked Autoencoders (MultiMAE). It differs from standard Masked Autoencoding in two key aspects: I) it can optionally accept additional modalities of information in the input besides the RGB image (hence "multi-modal"), and II) its training objective accordingly includes predicting multiple outputs besides the RGB image (hence "multi-task"). We make use of masking (across image patches and input modalities) to make training MultiMAE tractable as well as to ensure cross-modality predictive coding is indeed learned by the network. We show this pre-training strategy leads to a flexible, simple, and efficient framework with improved transfer results to downstream tasks. In particular, the same exact pre-trained network can be flexibly used when additional information besides RGB images is available or when no information other than RGB is available - in all configurations yielding competitive to or significantly better results than the baselines. To avoid needing training datasets with multiple modalities and tasks, we train MultiMAE entirely using pseudo labeling, which makes the framework widely applicable to any RGB dataset. The experiments are performed on multiple transfer tasks (image classification, semantic segmentation, depth estimation) and datasets (ImageNet, ADE20K, Taskonomy, Hypersim, NYUv2). The results show an intriguingly impressive capability by the model in cross-modal/task predictive coding and transfer.

Diffusion models have achieved remarkable success in image and video generation. In this work, we demonstrate that diffusion models can also generate high-performing neural network parameters. Our approach is simple, utilizing an autoencoder and a standard latent diffusion model. The autoencoder extracts latent representations of a subset of the trained network parameters. A diffusion model is then trained to synthesize these latent parameter representations from random noise. It then generates new representations that are passed through the autoencoder's decoder, whose outputs are ready to use as new subsets of network parameters. Across various architectures and datasets, our diffusion process consistently generates models of comparable or improved performance over trained networks, with minimal additional cost. Notably, we empirically find that the generated models perform differently with the trained networks. Our results encourage more exploration on the versatile use of diffusion models.

The goal of universal audio representation learning is to obtain foundational models that can be used for a variety of downstream tasks involving speech, music or environmental sounds. To approach this problem, methods inspired by self-supervised models from NLP, like BERT, are often used and adapted to audio. These models rely on the discrete nature of text, hence adopting this type of approach for audio processing requires either a change in the learning objective or mapping the audio signal to a set of discrete classes. In this work, we explore the use of EnCodec, a neural audio codec, to generate discrete targets for learning an universal audio model based on a masked autoencoder (MAE). We evaluate this approach, which we call EncodecMAE, on a wide range of audio tasks spanning speech, music and environmental sounds, achieving performances comparable or better than leading audio representation models.

Vision-specific concepts such as "region" have played a key role in extending general machine learning frameworks to tasks like object detection. Given the success of region-based detectors for supervised learning and the progress of intra-image methods for contrastive learning, we explore the use of regions for reconstructive pre-training. Starting from Masked Autoencoding (MAE) both as a baseline and an inspiration, we propose a parallel pre-text task tailored to address the one-to-many mapping between images and regions. Since such regions can be generated in an unsupervised way, our approach (R-MAE) inherits the wide applicability from MAE, while being more "region-aware". We conduct thorough analyses during the development of R-MAE, and converge on a variant that is both effective and efficient (1.3% overhead over MAE). Moreover, it shows consistent quantitative improvements when generalized to various pre-training data and downstream detection and segmentation benchmarks. Finally, we provide extensive qualitative visualizations to enhance the understanding of R-MAE's behaviour and potential. Code will be made available at https://github.com/facebookresearch/r-mae.

We introduce a novel masked pre-training technique for graph neural networks (GNNs) applied to computational fluid dynamics (CFD) problems. By randomly masking up to 40\% of input mesh nodes during pre-training, we force the model to learn robust representations of complex fluid dynamics. We pair this masking strategy with an asymmetric encoder-decoder architecture and gated multi-layer perceptrons to further enhance performance. The proposed method achieves state-of-the-art results on seven CFD datasets, including a new challenging dataset of 3D intracranial aneurysm simulations with over 250,000 nodes per mesh. Moreover, it significantly improves model performance and training efficiency across such diverse range of fluid simulation tasks. We demonstrate improvements of up to 60\% in long-term prediction accuracy compared to previous best models, while maintaining similar computational costs. Notably, our approach enables effective pre-training on multiple datasets simultaneously, significantly reducing the time and data required to achieve high performance on new tasks. Through extensive ablation studies, we provide insights into the optimal masking ratio, architectural choices, and training strategies.

Invasive brain-computer interfaces have garnered significant attention due to their high performance. The current intracranial stereoElectroEncephaloGraphy (sEEG) foundation models typically build univariate representations based on a single channel. Some of them further use Transformer to model the relationship among channels. However, due to the locality and specificity of brain computation, their performance on more difficult tasks, e.g., speech decoding, which demands intricate processing in specific brain regions, is yet to be fully investigated. We hypothesize that building multi-variate representations within certain brain regions can better capture the specific neural processing. To explore this hypothesis, we collect a well-annotated Chinese word-reading sEEG dataset, targeting language-related brain networks, over 12 subjects. Leveraging this benchmark dataset, we developed the Du-IN model that can extract contextual embeddings from specific brain regions through discrete codebook-guided mask modeling. Our model achieves SOTA performance on the downstream 61-word classification task, surpassing all baseline models. Model comparison and ablation analysis reveal that our design choices, including (i) multi-variate representation by fusing channels in vSMC and STG regions and (ii) self-supervision by discrete codebook-guided mask modeling, significantly contribute to these performances. Collectively, our approach, inspired by neuroscience findings, capitalizing on multi-variate neural representation from specific brain regions, is suitable for invasive brain modeling. It marks a promising neuro-inspired AI approach in BCI.

Dense passage retrieval aims to retrieve the relevant passages of a query from a large corpus based on dense representations (i.e., vectors) of the query and the passages. Recent studies have explored improving pre-trained language models to boost dense retrieval performance. This paper proposes CoT-MAE (ConTextual Masked Auto-Encoder), a simple yet effective generative pre-training method for dense passage retrieval. CoT-MAE employs an asymmetric encoder-decoder architecture that learns to compress the sentence semantics into a dense vector through self-supervised and context-supervised masked auto-encoding. Precisely, self-supervised masked auto-encoding learns to model the semantics of the tokens inside a text span, and context-supervised masked auto-encoding learns to model the semantical correlation between the text spans. We conduct experiments on large-scale passage retrieval benchmarks and show considerable improvements over strong baselines, demonstrating the high efficiency of CoT-MAE. Our code is available at https://github.com/caskcsg/ir/tree/main/cotmae.

At the most basic level, pixels are the source of the visual information through which we perceive the world. Pixels contain information at all levels, ranging from low-level attributes to high-level concepts. Autoencoders represent a classical and long-standing paradigm for learning representations from pixels or other raw inputs. In this work, we demonstrate that autoencoder-based self-supervised learning remains competitive today and can produce strong representations for downstream tasks, while remaining simple, stable, and efficient. Our model, codenamed "Pixio", is an enhanced masked autoencoder (MAE) with more challenging pre-training tasks and more capable architectures. The model is trained on 2B web-crawled images with a self-curation strategy with minimal human curation. Pixio performs competitively across a wide range of downstream tasks in the wild, including monocular depth estimation (e.g., Depth Anything), feed-forward 3D reconstruction (i.e., MapAnything), semantic segmentation, and robot learning, outperforming or matching DINOv3 trained at similar scales. Our results suggest that pixel-space self-supervised learning can serve as a promising alternative and a complement to latent-space approaches.

Masked time series modeling has recently gained much attention as a self-supervised representation learning strategy for time series. Inspired by masked image modeling in computer vision, recent works first patchify and partially mask out time series, and then train Transformers to capture the dependencies between patches by predicting masked patches from unmasked patches. However, we argue that capturing such patch dependencies might not be an optimal strategy for time series representation learning; rather, learning to embed patches independently results in better time series representations. Specifically, we propose to use 1) the simple patch reconstruction task, which autoencode each patch without looking at other patches, and 2) the simple patch-wise MLP that embeds each patch independently. In addition, we introduce complementary contrastive learning to hierarchically capture adjacent time series information efficiently. Our proposed method improves time series forecasting and classification performance compared to state-of-the-art Transformer-based models, while it is more efficient in terms of the number of parameters and training/inference time. Code is available at this repository: https://github.com/seunghan96/pits.

We present MindEye, a novel fMRI-to-image approach to retrieve and reconstruct viewed images from brain activity. Our model comprises two parallel submodules that are specialized for retrieval (using contrastive learning) and reconstruction (using a diffusion prior). MindEye can map fMRI brain activity to any high dimensional multimodal latent space, like CLIP image space, enabling image reconstruction using generative models that accept embeddings from this latent space. We comprehensively compare our approach with other existing methods, using both qualitative side-by-side comparisons and quantitative evaluations, and show that MindEye achieves state-of-the-art performance in both reconstruction and retrieval tasks. In particular, MindEye can retrieve the exact original image even among highly similar candidates indicating that its brain embeddings retain fine-grained image-specific information. This allows us to accurately retrieve images even from large-scale databases like LAION-5B. We demonstrate through ablations that MindEye's performance improvements over previous methods result from specialized submodules for retrieval and reconstruction, improved training techniques, and training models with orders of magnitude more parameters. Furthermore, we show that MindEye can better preserve low-level image features in the reconstructions by using img2img, with outputs from a separate autoencoder. All code is available on GitHub.

Masked Image Modeling (MIM) arises as a promising option for Vision Transformers among various self-supervised learning (SSL) methods. The essence of MIM lies in token-wise masked patch predictions, with targets patchified from images; or generated by pre-trained tokenizers or models. We argue targets from the pre-trained models usually exhibit spatial inconsistency, which makes it excessively challenging for the model to follow to learn more discriminative representations. To mitigate the issue, we introduce a novel self-supervision signal based on Dynamic Token Morphing (DTM), which dynamically aggregates contextually related tokens. DTM can be generally applied to various SSL frameworks, yet we propose a simple MIM that employs DTM to effectively improve the performance barely introducing extra training costs. Our experiments on ImageNet-1K and ADE20K evidently demonstrate the superiority of our methods. Furthermore, the comparative evaluation of iNaturalist and Fine-grained Visual Classification datasets further validates the transferability of our method on various downstream tasks. Our code will be released publicly.

Masked Video Autoencoder (MVA) approaches have demonstrated their potential by significantly outperforming previous video representation learning methods. However, they waste an excessive amount of computations and memory in predicting uninformative tokens/frames due to random masking strategies. (e.g., over 16 nodes with 128 NVIDIA A100 GPUs). To resolve this issue, we exploit the unequal information density among the patches in videos and propose EVEREST, a surprisingly efficient MVA approach for video representation learning that finds tokens containing rich motion features and discards uninformative ones during both pre-training and fine-tuning. We further present an information-intensive frame selection strategy that allows the model to focus on informative and causal frames with minimal redundancy. Our method significantly reduces the computation and memory requirements of MVA, enabling the pre-training and fine-tuning on a single machine with 8 GPUs while achieving comparable performance to computation- and memory-heavy baselines on multiple benchmarks and the uncurated Ego4D dataset. We hope that our work contributes to reducing the barrier to further research on video understanding.

Masked Autoencoders (MAEs) have shown competitive results in audio classification by learning rich semantic representations through an efficient self-supervised reconstruction task. However, general-purpose models fail to generalize well when applied directly to fine-grained audio domains. Specifically, bird-sound classification requires distinguishing subtle inter-species differences and managing high intra-species acoustic variability, thereby revealing the performance limitations of general-domain Audio-MAE models. This work demonstrates that bridging this domain gap requires more than domain-specific pretraining data; adapting the entire training pipeline is crucial. We systematically revisit and adapt the pretraining recipe, fine-tuning methods, and frozen feature utilization to bird sounds using BirdSet, a large-scale bioacoustic dataset comparable to AudioSet. Our resulting Bird-MAE achieves new state-of-the-art results in BirdSet's multi-label classification benchmark. Additionally, we introduce the parameter-efficient prototypical probing, enhancing the utility of frozen MAE representations and closely approaching fine-tuning performance in low-resource settings. Bird-MAE's prototypical probes outperform linear probing by up to 37%_p in MAP and narrow the gap to fine-tuning to approximately 3.3%_p on average across BirdSet downstream tasks. Bird-MAE also demonstrates robust few-shot capabilities with prototypical probing in our newly established few-shot benchmark on BirdSet, highlighting the potential of tailored self-supervised learning pipelines for fine-grained audio domains.

Generative modeling and representation learning are two key tasks in computer vision. However, these models are typically trained independently, which ignores the potential for each task to help the other, and leads to training and model maintenance overheads. In this work, we propose MAsked Generative Encoder (MAGE), the first framework to unify SOTA image generation and self-supervised representation learning. Our key insight is that using variable masking ratios in masked image modeling pre-training can allow generative training (very high masking ratio) and representation learning (lower masking ratio) under the same training framework. Inspired by previous generative models, MAGE uses semantic tokens learned by a vector-quantized GAN at inputs and outputs, combining this with masking. We can further improve the representation by adding a contrastive loss to the encoder output. We extensively evaluate the generation and representation learning capabilities of MAGE. On ImageNet-1K, a single MAGE ViT-L model obtains 9.10 FID in the task of class-unconditional image generation and 78.9% top-1 accuracy for linear probing, achieving state-of-the-art performance in both image generation and representation learning. Code is available at https://github.com/LTH14/mage.

Recent video masked autoencoder (MAE) works have designed improved masking algorithms focused on saliency. These works leverage visual cues such as motion to mask the most salient regions. However, the robustness of such visual cues depends on how often input videos match underlying assumptions. On the other hand, natural language description is an information dense representation of video that implicitly captures saliency without requiring modality-specific assumptions, and has not been explored yet for video MAE. To this end, we introduce a novel text-guided masking algorithm (TGM) that masks the video regions with highest correspondence to paired captions. Without leveraging any explicit visual cues for saliency, our TGM is competitive with state-of-the-art masking algorithms such as motion-guided masking. To further benefit from the semantics of natural language for masked reconstruction, we next introduce a unified framework for joint MAE and masked video-text contrastive learning. We show that across existing masking algorithms, unifying MAE and masked video-text contrastive learning improves downstream performance compared to pure MAE on a variety of video recognition tasks, especially for linear probe. Within this unified framework, our TGM achieves the best relative performance on five action recognition and one egocentric datasets, highlighting the complementary nature of natural language for masked video modeling.

Brain-computer interfaces (BCIs) enable direct communication between the brain and external devices. Recent EEG foundation models aim to learn generalized representations across diverse BCI paradigms. However, these approaches overlook fundamental paradigm-specific neurophysiological distinctions, limiting their generalization ability. Importantly, in practical BCI deployments, the specific paradigm such as motor imagery (MI) for stroke rehabilitation or assistive robotics, is generally determined prior to data acquisition. This paper proposes MIRepNet, the first EEG foundation model tailored for the MI paradigm. MIRepNet comprises a high-quality EEG preprocessing pipeline incorporating a neurophysiologically-informed channel template, adaptable to EEG headsets with arbitrary electrode configurations. Furthermore, we introduce a hybrid pretraining strategy that combines self-supervised masked token reconstruction and supervised MI classification, facilitating rapid adaptation and accurate decoding on novel downstream MI tasks with fewer than 30 trials per class. Extensive evaluations across five public MI datasets demonstrated that MIRepNet consistently achieved state-of-the-art performance, significantly outperforming both specialized and generalized EEG models. Our code will be available on GitHubhttps://github.com/staraink/MIRepNet.

The autoencoder is an unsupervised learning paradigm that aims to create a compact latent representation of data by minimizing the reconstruction loss. However, it tends to overlook the fact that most data (images) are embedded in a lower-dimensional space, which is crucial for effective data representation. To address this limitation, we propose a novel approach called Low-Rank Autoencoder (LoRAE). In LoRAE, we incorporated a low-rank regularizer to adaptively reconstruct a low-dimensional latent space while preserving the basic objective of an autoencoder. This helps embed the data in a lower-dimensional space while preserving important information. It is a simple autoencoder extension that learns low-rank latent space. Theoretically, we establish a tighter error bound for our model. Empirically, our model's superiority shines through various tasks such as image generation and downstream classification. Both theoretical and practical outcomes highlight the importance of acquiring low-dimensional embeddings.

Recent advances in Large Multimodal Models (LMMs) lead to significant breakthroughs in both academia and industry. One question that arises is how we, as humans, can understand their internal neural representations. This paper takes an initial step towards addressing this question by presenting a versatile framework to identify and interpret the semantics within LMMs. Specifically, 1) we first apply a Sparse Autoencoder(SAE) to disentangle the representations into human understandable features. 2) We then present an automatic interpretation framework to interpreted the open-semantic features learned in SAE by the LMMs themselves. We employ this framework to analyze the LLaVA-NeXT-8B model using the LLaVA-OV-72B model, demonstrating that these features can effectively steer the model's behavior. Our results contribute to a deeper understanding of why LMMs excel in specific tasks, including EQ tests, and illuminate the nature of their mistakes along with potential strategies for their rectification. These findings offer new insights into the internal mechanisms of LMMs and suggest parallels with the cognitive processes of the human brain.

Masked image modeling (MIM) has shown great promise for self-supervised learning (SSL) yet been criticized for learning inefficiency. We believe the insufficient utilization of training signals should be responsible. To alleviate this issue, we introduce a conceptually simple yet learning-efficient MIM training scheme, termed Disjoint Masking with Joint Distillation (DMJD). For disjoint masking (DM), we sequentially sample multiple masked views per image in a mini-batch with the disjoint regulation to raise the usage of tokens for reconstruction in each image while keeping the masking rate of each view. For joint distillation (JD), we adopt a dual branch architecture to respectively predict invisible (masked) and visible (unmasked) tokens with superior learning targets. Rooting in orthogonal perspectives for training efficiency improvement, DM and JD cooperatively accelerate the training convergence yet not sacrificing the model generalization ability. Concretely, DM can train ViT with half of the effective training epochs (3.7 times less time-consuming) to report competitive performance. With JD, our DMJD clearly improves the linear probing classification accuracy over ConvMAE by 5.8%. On fine-grained downstream tasks like semantic segmentation, object detection, etc., our DMJD also presents superior generalization compared with state-of-the-art SSL methods. The code and model will be made public at https://github.com/mx-mark/DMJD.

Transformers and masked language modeling are quickly being adopted and explored in computer vision as vision transformers and masked image modeling (MIM). In this work, we argue that image token masking differs from token masking in text, due to the amount and correlation of tokens in an image. In particular, to generate a challenging pretext task for MIM, we advocate a shift from random masking to informed masking. We develop and exhibit this idea in the context of distillation-based MIM, where a teacher transformer encoder generates an attention map, which we use to guide masking for the student. We thus introduce a novel masking strategy, called attention-guided masking (AttMask), and we demonstrate its effectiveness over random masking for dense distillation-based MIM as well as plain distillation-based self-supervised learning on classification tokens. We confirm that AttMask accelerates the learning process and improves the performance on a variety of downstream tasks. We provide the implementation code at https://github.com/gkakogeorgiou/attmask.

Masked (or absorbing) diffusion is actively explored as an alternative to autoregressive models for generative modeling of discrete data. However, existing work in this area has been hindered by unnecessarily complex model formulations and unclear relationships between different perspectives, leading to suboptimal parameterization, training objectives, and ad hoc adjustments to counteract these issues. In this work, we aim to provide a simple and general framework that unlocks the full potential of masked diffusion models. We show that the continuous-time variational objective of masked diffusion models is a simple weighted integral of cross-entropy losses. Our framework also enables training generalized masked diffusion models with state-dependent masking schedules. When evaluated by perplexity, our models trained on OpenWebText surpass prior diffusion language models at GPT-2 scale and demonstrate superior performance on 4 out of 5 zero-shot language modeling tasks. Furthermore, our models vastly outperform previous discrete diffusion models on pixel-level image modeling, achieving 2.78~(CIFAR-10) and 3.42 (ImageNet 64times64) bits per dimension that are comparable or better than autoregressive models of similar sizes.

Vision Transformers (ViT) become widely-adopted architectures for various vision tasks. Masked auto-encoding for feature pretraining and multi-scale hybrid convolution-transformer architectures can further unleash the potentials of ViT, leading to state-of-the-art performances on image classification, detection and semantic segmentation. In this paper, our ConvMAE framework demonstrates that multi-scale hybrid convolution-transformer can learn more discriminative representations via the mask auto-encoding scheme. However, directly using the original masking strategy leads to the heavy computational cost and pretraining-finetuning discrepancy. To tackle the issue, we adopt the masked convolution to prevent information leakage in the convolution blocks. A simple block-wise masking strategy is proposed to ensure computational efficiency. We also propose to more directly supervise the multi-scale features of the encoder to boost multi-scale features. Based on our pretrained ConvMAE models, ConvMAE-Base improves ImageNet-1K finetuning accuracy by 1.4% compared with MAE-Base. On object detection, ConvMAE-Base finetuned for only 25 epochs surpasses MAE-Base fined-tuned for 100 epochs by 2.9% box AP and 2.2% mask AP respectively. Code and pretrained models are available at https://github.com/Alpha-VL/ConvMAE.

In this work, we introduce long-video masked-embedding autoencoders (LV-MAE), a self-supervised learning framework for long video representation. Our approach treats short- and long-span dependencies as two separate tasks. Such decoupling allows for a more intuitive video processing where short-span spatiotemporal primitives are first encoded and are then used to capture long-range dependencies across consecutive video segments. To achieve this, we leverage advanced off-the-shelf multimodal encoders to extract representations from short segments within the long video, followed by pre-training a masked-embedding autoencoder capturing high-level interactions across segments. LV-MAE is highly efficient to train and enables the processing of much longer videos by alleviating the constraint on the number of input frames. Furthermore, unlike existing methods that typically pre-train on short-video datasets, our approach offers self-supervised pre-training using long video samples (e.g., 20+ minutes video clips) at scale. Using LV-MAE representations, we achieve state-of-the-art results on three long-video benchmarks -- LVU, COIN, and Breakfast -- employing only a simple classification head for either attentive or linear probing. Finally, to assess LV-MAE pre-training and visualize its reconstruction quality, we leverage the video-language aligned space of short video representations to monitor LV-MAE through video-text retrieval.

There is an increasingly apparent need for validating the classifications made by deep learning systems in safety-critical applications like autonomous vehicle systems. A number of recent papers have proposed methods for detecting anomalous image data that appear different from known inlier data samples, including reconstruction-based autoencoders. Autoencoders optimize the compression of input data to a latent space of a dimensionality smaller than the original input and attempt to accurately reconstruct the input using that compressed representation. Since the latent vector is optimized to capture the salient features from the inlier class only, it is commonly assumed that images of objects from outside of the training class cannot effectively be compressed and reconstructed. Some thus consider reconstruction error as a kind of novelty measure. Here we suggest that reconstruction-based approaches fail to capture particular anomalies that lie far from known inlier samples in latent space but near the latent dimension manifold defined by the parameters of the model. We propose incorporating the Mahalanobis distance in latent space to better capture these out-of-distribution samples and our results show that this method often improves performance over the baseline approach.

Driven by improved architectures and better representation learning frameworks, the field of visual recognition has enjoyed rapid modernization and performance boost in the early 2020s. For example, modern ConvNets, represented by ConvNeXt, have demonstrated strong performance in various scenarios. While these models were originally designed for supervised learning with ImageNet labels, they can also potentially benefit from self-supervised learning techniques such as masked autoencoders (MAE). However, we found that simply combining these two approaches leads to subpar performance. In this paper, we propose a fully convolutional masked autoencoder framework and a new Global Response Normalization (GRN) layer that can be added to the ConvNeXt architecture to enhance inter-channel feature competition. This co-design of self-supervised learning techniques and architectural improvement results in a new model family called ConvNeXt V2, which significantly improves the performance of pure ConvNets on various recognition benchmarks, including ImageNet classification, COCO detection, and ADE20K segmentation. We also provide pre-trained ConvNeXt V2 models of various sizes, ranging from an efficient 3.7M-parameter Atto model with 76.7% top-1 accuracy on ImageNet, to a 650M Huge model that achieves a state-of-the-art 88.9% accuracy using only public training data.

Attention Deficit Hyperactive Disorder (ADHD) is a common behavioral problem affecting children. In this work, we investigate the automatic classification of ADHD subjects using the resting state Functional Magnetic Resonance Imaging (fMRI) sequences of the brain. We show that the brain can be modeled as a functional network, and certain properties of the networks differ in ADHD subjects from control subjects. We compute the pairwise correlation of brain voxels' activity over the time frame of the experimental protocol which helps to model the function of a brain as a network. Different network features are computed for each of the voxels constructing the network. The concatenation of the network features of all the voxels in a brain serves as the feature vector. Feature vectors from a set of subjects are then used to train a PCA-LDA (principal component analysis-linear discriminant analysis) based classifier. We hypothesized that ADHD-related differences lie in some specific regions of the brain and using features only from those regions is sufficient to discriminate ADHD and control subjects. We propose a method to create a brain mask that includes the useful regions only and demonstrate that using the feature from the masked regions improves classification accuracy on the test data set. We train our classifier with 776 subjects and test on 171 subjects provided by The Neuro Bureau for the ADHD-200 challenge. We demonstrate the utility of graph-motif features, specifically the maps that represent the frequency of participation of voxels in network cycles of length 3. The best classification performance (69.59%) is achieved using 3-cycle map features with masking. Our proposed approach holds promise in being able to diagnose and understand the disorder.

Generating high-quality and person-generic visual dubbing remains a challenge. Recent innovation has seen the advent of a two-stage paradigm, decoupling the rendering and lip synchronization process facilitated by intermediate representation as a conduit. Still, previous methodologies rely on rough landmarks or are confined to a single speaker, thus limiting their performance. In this paper, we propose DiffDub: Diffusion-based dubbing. We first craft the Diffusion auto-encoder by an inpainting renderer incorporating a mask to delineate editable zones and unaltered regions. This allows for seamless filling of the lower-face region while preserving the remaining parts. Throughout our experiments, we encountered several challenges. Primarily, the semantic encoder lacks robustness, constricting its ability to capture high-level features. Besides, the modeling ignored facial positioning, causing mouth or nose jitters across frames. To tackle these issues, we employ versatile strategies, including data augmentation and supplementary eye guidance. Moreover, we encapsulated a conformer-based reference encoder and motion generator fortified by a cross-attention mechanism. This enables our model to learn person-specific textures with varying references and reduces reliance on paired audio-visual data. Our rigorous experiments comprehensively highlight that our ground-breaking approach outpaces existing methods with considerable margins and delivers seamless, intelligible videos in person-generic and multilingual scenarios.

Modern sensors produce increasingly rich streams of high-resolution data. Due to resource constraints, machine learning systems discard the vast majority of this information via resolution reduction. Compressed-domain learning allows models to operate on compact latent representations, allowing higher effective resolution for the same budget. However, existing compression systems are not ideal for compressed learning. Linear transform coding and end-to-end learned compression systems reduce bitrate, but do not uniformly reduce dimensionality; thus, they do not meaningfully increase efficiency. Generative autoencoders reduce dimensionality, but their adversarial or perceptual objectives lead to significant information loss. To address these limitations, we introduce WaLLoC (Wavelet Learned Lossy Compression), a neural codec architecture that combines linear transform coding with nonlinear dimensionality-reducing autoencoders. WaLLoC sandwiches a shallow, asymmetric autoencoder and entropy bottleneck between an invertible wavelet packet transform. Across several key metrics, WaLLoC outperforms the autoencoders used in state-of-the-art latent diffusion models. WaLLoC does not require perceptual or adversarial losses to represent high-frequency detail, providing compatibility with modalities beyond RGB images and stereo audio. WaLLoC's encoder consists almost entirely of linear operations, making it exceptionally efficient and suitable for mobile computing, remote sensing, and learning directly from compressed data. We demonstrate WaLLoC's capability for compressed-domain learning across several tasks, including image classification, colorization, document understanding, and music source separation. Our code, experiments, and pre-trained audio and image codecs are available at https://ut-sysml.org/walloc

Image-to-fMRI encoding is important for both neuroscience research and practical applications. However, such "Brain-Encoders" have been typically trained per-subject and per fMRI-dataset, thus restricted to very limited training data. In this paper we propose a Universal Brain-Encoder, which can be trained jointly on data from many different subjects/datasets/machines. What makes this possible is our new voxel-centric Encoder architecture, which learns a unique "voxel-embedding" per brain-voxel. Our Encoder trains to predict the response of each brain-voxel on every image, by directly computing the cross-attention between the brain-voxel embedding and multi-level deep image features. This voxel-centric architecture allows the functional role of each brain-voxel to naturally emerge from the voxel-image cross-attention. We show the power of this approach to (i) combine data from multiple different subjects (a "Crowd of Brains") to improve each individual brain-encoding, (ii) quick & effective Transfer-Learning across subjects, datasets, and machines (e.g., 3-Tesla, 7-Tesla), with few training examples, and (iii) use the learned voxel-embeddings as a powerful tool to explore brain functionality (e.g., what is encoded where in the brain).

Self-supervised learning has become an incredibly successful method for feature learning, widely applied to many downstream tasks. It has proven especially effective for discriminative tasks, surpassing the trending generative models. However, generative models perform better in image generation and detail enhancement. Thus, it is natural for us to find a connection between SSL and generative models to further enhance the representation capacity of SSL. As generative models can create new samples by approximating the data distribution, such modeling should also lead to a semantic understanding of the raw visual data, which is necessary for recognition tasks. This enlightens us to combine the core principle of the diffusion model: diffusion noise, with SSL to learn a competitive recognition model. Specifically, diffusion noise can be viewed as a particular state of mask that reveals a close relationship between masked image modeling (MIM) and diffusion models. In this paper, we propose N-JEPA (Noise-based JEPA) to incorporate diffusion noise into MIM by the position embedding of masked tokens. The multi-level noise schedule is a series of feature augmentations to further enhance the robustness of our model. We perform a comprehensive study to confirm its effectiveness in the classification of downstream tasks. Codes will be released soon in public.

Humans can easily imagine the complete 3D geometry of occluded objects and scenes. This appealing ability is vital for recognition and understanding. To enable such capability in AI systems, we propose VoxFormer, a Transformer-based semantic scene completion framework that can output complete 3D volumetric semantics from only 2D images. Our framework adopts a two-stage design where we start from a sparse set of visible and occupied voxel queries from depth estimation, followed by a densification stage that generates dense 3D voxels from the sparse ones. A key idea of this design is that the visual features on 2D images correspond only to the visible scene structures rather than the occluded or empty spaces. Therefore, starting with the featurization and prediction of the visible structures is more reliable. Once we obtain the set of sparse queries, we apply a masked autoencoder design to propagate the information to all the voxels by self-attention. Experiments on SemanticKITTI show that VoxFormer outperforms the state of the art with a relative improvement of 20.0% in geometry and 18.1% in semantics and reduces GPU memory during training to less than 16GB. Our code is available on https://github.com/NVlabs/VoxFormer.

Autoencoders are a popular model in many branches of machine learning and lossy data compression. However, their fundamental limits, the performance of gradient methods and the features learnt during optimization remain poorly understood, even in the two-layer setting. In fact, earlier work has considered either linear autoencoders or specific training regimes (leading to vanishing or diverging compression rates). Our paper addresses this gap by focusing on non-linear two-layer autoencoders trained in the challenging proportional regime in which the input dimension scales linearly with the size of the representation. Our results characterize the minimizers of the population risk, and show that such minimizers are achieved by gradient methods; their structure is also unveiled, thus leading to a concise description of the features obtained via training. For the special case of a sign activation function, our analysis establishes the fundamental limits for the lossy compression of Gaussian sources via (shallow) autoencoders. Finally, while the results are proved for Gaussian data, numerical simulations on standard datasets display the universality of the theoretical predictions.

Self-supervised learning guided by masked image modelling, such as Masked AutoEncoder (MAE), has attracted wide attention for pretraining vision transformers in remote sensing. However, MAE tends to excessively focus on pixel details, thereby limiting the model's capacity for semantic understanding, in particular for noisy SAR images. In this paper, we explore spectral and spatial remote sensing image features as improved MAE-reconstruction targets. We first conduct a study on reconstructing various image features, all performing comparably well or better than raw pixels. Based on such observations, we propose Feature Guided Masked Autoencoder (FG-MAE): reconstructing a combination of Histograms of Oriented Graidents (HOG) and Normalized Difference Indices (NDI) for multispectral images, and reconstructing HOG for SAR images. Experimental results on three downstream tasks illustrate the effectiveness of FG-MAE with a particular boost for SAR imagery. Furthermore, we demonstrate the well-inherited scalability of FG-MAE and release a first series of pretrained vision transformers for medium resolution SAR and multispectral images.

Masked image modeling (MIM) has demonstrated impressive results in self-supervised representation learning by recovering corrupted image patches. However, most existing studies operate on low-level image pixels, which hinders the exploitation of high-level semantics for representation models. In this work, we propose to use a semantic-rich visual tokenizer as the reconstruction target for masked prediction, providing a systematic way to promote MIM from pixel-level to semantic-level. Specifically, we propose vector-quantized knowledge distillation to train the tokenizer, which discretizes a continuous semantic space to compact codes. We then pretrain vision Transformers by predicting the original visual tokens for the masked image patches. Furthermore, we introduce a patch aggregation strategy which associates discrete image patches to enhance global semantic representation. Experiments on image classification and semantic segmentation show that BEiT v2 outperforms all compared MIM methods. On ImageNet-1K (224 size), the base-size BEiT v2 achieves 85.5% top-1 accuracy for fine-tuning and 80.1% top-1 accuracy for linear probing. The large-size BEiT v2 obtains 87.3% top-1 accuracy for ImageNet-1K (224 size) fine-tuning, and 56.7% mIoU on ADE20K for semantic segmentation. The code and pretrained models are available at https://aka.ms/beitv2.

Masked Image Modeling (MIM) achieves outstanding success in self-supervised representation learning. Unfortunately, MIM models typically have huge computational burden and slow learning process, which is an inevitable obstacle for their industrial applications. Although the lower layers play the key role in MIM, existing MIM models conduct reconstruction task only at the top layer of encoder. The lower layers are not explicitly guided and the interaction among their patches is only used for calculating new activations. Considering the reconstruction task requires non-trivial inter-patch interactions to reason target signals, we apply it to multiple local layers including lower and upper layers. Further, since the multiple layers expect to learn the information of different scales, we design local multi-scale reconstruction, where the lower and upper layers reconstruct fine-scale and coarse-scale supervision signals respectively. This design not only accelerates the representation learning process by explicitly guiding multiple layers, but also facilitates multi-scale semantical understanding to the input. Extensive experiments show that with significantly less pre-training burden, our model achieves comparable or better performance on classification, detection and segmentation tasks than existing MIM models.

Traditional transformer-based semantic segmentation relies on quantized embeddings. However, our analysis reveals that autoencoder accuracy on segmentation mask using quantized embeddings (e.g. VQ-VAE) is 8% lower than continuous-valued embeddings (e.g. KL-VAE). Motivated by this, we propose a continuous-valued embedding framework for semantic segmentation. By reformulating semantic mask generation as a continuous image-to-embedding diffusion process, our approach eliminates the need for discrete latent representations while preserving fine-grained spatial and semantic details. Our key contribution includes a diffusion-guided autoregressive transformer that learns a continuous semantic embedding space by modeling long-range dependencies in image features. Our framework contains a unified architecture combining a VAE encoder for continuous feature extraction, a diffusion-guided transformer for conditioned embedding generation, and a VAE decoder for semantic mask reconstruction. Our setting facilitates zero-shot domain adaptation capabilities enabled by the continuity of the embedding space. Experiments across diverse datasets (e.g., Cityscapes and domain-shifted variants) demonstrate state-of-the-art robustness to distribution shifts, including adverse weather (e.g., fog, snow) and viewpoint variations. Our model also exhibits strong noise resilience, achieving robust performance (approx 95% AP compared to baseline) under gaussian noise, moderate motion blur, and moderate brightness/contrast variations, while experiencing only a moderate impact (approx 90% AP compared to baseline) from 50% salt and pepper noise, saturation and hue shifts. Code available: https://github.com/mahmed10/CAMSS.git

Unsupervised object-centric learning aims to decompose scenes into interpretable object entities, termed slots. Slot-based auto-encoders stand out as a prominent method for this task. Within them, crucial aspects include guiding the encoder to generate object-specific slots and ensuring the decoder utilizes them during reconstruction. This work introduces two novel techniques, (i) an attention-based self-training approach, which distills superior slot-based attention masks from the decoder to the encoder, enhancing object segmentation, and (ii) an innovative patch-order permutation strategy for autoregressive transformers that strengthens the role of slot vectors in reconstruction. The effectiveness of these strategies is showcased experimentally. The combined approach significantly surpasses prior slot-based autoencoder methods in unsupervised object segmentation, especially with complex real-world images. We provide the implementation code at https://github.com/gkakogeorgiou/spot .

Deep learning in medical imaging has the potential to minimize the risk of diagnostic errors, reduce radiologist workload, and accelerate diagnosis. Training such deep learning models requires large and accurate datasets, with annotations for all training samples. However, in the medical imaging domain, annotated datasets for specific tasks are often small due to the high complexity of annotations, limited access, or the rarity of diseases. To address this challenge, deep learning models can be pre-trained on large image datasets without annotations using methods from the field of self-supervised learning. After pre-training, small annotated datasets are sufficient to fine-tune the models for a specific task. The most popular self-supervised pre-training approaches in medical imaging are based on contrastive learning. However, recent studies in natural image processing indicate a strong potential for masked autoencoder approaches. Our work compares state-of-the-art contrastive learning methods with the recently introduced masked autoencoder approach "SparK" for convolutional neural networks (CNNs) on medical images. Therefore we pre-train on a large unannotated CT image dataset and fine-tune on several CT classification tasks. Due to the challenge of obtaining sufficient annotated training data in medical imaging, it is of particular interest to evaluate how the self-supervised pre-training methods perform when fine-tuning on small datasets. By experimenting with gradually reducing the training dataset size for fine-tuning, we find that the reduction has different effects depending on the type of pre-training chosen. The SparK pre-training method is more robust to the training dataset size than the contrastive methods. Based on our results, we propose the SparK pre-training for medical imaging tasks with only small annotated datasets.

Autoencoder (AE) is the key to the success of latent diffusion models for image and video generation, reducing the denoising resolution and improving efficiency. However, the power of AE has long been underexplored in terms of network design, compression ratio, and training strategy. In this work, we systematically examine the architecture design choices and optimize the computation distribution to obtain a series of efficient and high-compression video AEs that can decode in real time even on mobile devices. We also propose an omni-training objective to unify the design of plain Autoencoder and image-conditioned I2V VAE, achieving multifunctionality in a single VAE network but with enhanced quality. In addition, we propose a novel latent consistency loss that provides stable improvements in reconstruction quality. Latent consistency loss outperforms prior auxiliary losses including LPIPS, GAN and DWT in terms of both quality improvements and simplicity. H3AE achieves ultra-high compression ratios and real-time decoding speed on GPU and mobile, and outperforms prior arts in terms of reconstruction metrics by a large margin. We finally validate our AE by training a DiT on its latent space and demonstrate fast, high-quality text-to-video generation capability.

With the recent success of artificial intelligence in neuroscience, a number of deep learning (DL) models were proposed for classification, anomaly detection, and pattern recognition tasks in electroencephalography (EEG). EEG is a multi-channel time-series that provides information about the individual brain activity for diagnostics, neuro-rehabilitation, and other applications (including emotions recognition). Two main issues challenge the existing DL-based modeling methods for EEG: the high variability between subjects and the low signal-to-noise ratio making it difficult to ensure a good quality in the EEG data. In this paper, we propose two variational autoencoder models, namely vEEGNet-ver3 and hvEEGNet, to target the problem of high-fidelity EEG reconstruction. We properly designed their architectures using the blocks of the well-known EEGNet as the encoder, and proposed a loss function based on dynamic time warping. We tested the models on the public Dataset 2a - BCI Competition IV, where EEG was collected from 9 subjects and 22 channels. hvEEGNet was found to reconstruct the EEG data with very high-fidelity, outperforming most previous solutions (including our vEEGNet-ver3 ). Furthermore, this was consistent across all subjects. Interestingly, hvEEGNet made it possible to discover that this popular dataset includes a number of corrupted EEG recordings that might have influenced previous literature results. We also investigated the training behaviour of our models and related it with the quality and the size of the input EEG dataset, aiming at opening a new research debate on this relationship. In the future, hvEEGNet could be used as anomaly (e.g., artefact) detector in large EEG datasets to support the domain experts, but also the latent representations it provides could be used in other classification problems and EEG data generation.

How to decode human vision through neural signals has attracted a long-standing interest in neuroscience and machine learning. Modern contrastive learning and generative models improved the performance of fMRI-based visual decoding and reconstruction. However, the high cost and low temporal resolution of fMRI limit their applications in brain-computer interfaces (BCIs), prompting a high need for EEG-based visual reconstruction. In this study, we present an EEG-based visual reconstruction framework. It consists of a plug-and-play EEG encoder called the Adaptive Thinking Mapper (ATM), which is aligned with image embeddings, and a two-stage EEG guidance image generator that first transforms EEG features into image priors and then reconstructs the visual stimuli with a pre-trained image generator. Our approach allows EEG embeddings to achieve superior performance in image classification and retrieval tasks. Our two-stage image generation strategy vividly reconstructs images seen by humans. Furthermore, we analyzed the impact of signals from different time windows and brain regions on decoding and reconstruction. The versatility of our framework is demonstrated in the magnetoencephalogram (MEG) data modality. We report that EEG-based visual decoding achieves SOTA performance, highlighting the portability, low cost, and high temporal resolution of EEG, enabling a wide range of BCI applications. The code of ATM is available at https://github.com/dongyangli-del/EEG_Image_decode.

Feature engineering has demonstrated substantial utility for many machine learning workflows, such as in the small data regime or when distribution shifts are severe. Thus automating this capability can relieve much manual effort and improve model performance. Towards this, we propose AutoMAN, or Automated Mask-based Feature Engineering, an automated feature engineering framework that achieves high accuracy, low latency, and can be extended to heterogeneous and time-varying data. AutoMAN is based on effectively exploring the candidate transforms space, without explicitly manifesting transformed features. This is achieved by learning feature importance masks, which can be extended to support other modalities such as time series. AutoMAN learns feature transform importance end-to-end, incorporating a dataset's task target directly into feature engineering, resulting in state-of-the-art performance with significantly lower latency compared to alternatives.

We present ReMasker, a new method of imputing missing values in tabular data by extending the masked autoencoding framework. Compared with prior work, ReMasker is both simple -- besides the missing values (i.e., naturally masked), we randomly ``re-mask'' another set of values, optimize the autoencoder by reconstructing this re-masked set, and apply the trained model to predict the missing values; and effective -- with extensive evaluation on benchmark datasets, we show that ReMasker performs on par with or outperforms state-of-the-art methods in terms of both imputation fidelity and utility under various missingness settings, while its performance advantage often increases with the ratio of missing data. We further explore theoretical justification for its effectiveness, showing that ReMasker tends to learn missingness-invariant representations of tabular data. Our findings indicate that masked modeling represents a promising direction for further research on tabular data imputation. The code is publicly available.

Neural fields excel in computer vision and robotics due to their ability to understand the 3D visual world such as inferring semantics, geometry, and dynamics. Given the capabilities of neural fields in densely representing a 3D scene from 2D images, we ask the question: Can we scale their self-supervised pretraining, specifically using masked autoencoders, to generate effective 3D representations from posed RGB images. Owing to the astounding success of extending transformers to novel data modalities, we employ standard 3D Vision Transformers to suit the unique formulation of NeRFs. We leverage NeRF's volumetric grid as a dense input to the transformer, contrasting it with other 3D representations such as pointclouds where the information density can be uneven, and the representation is irregular. Due to the difficulty of applying masked autoencoders to an implicit representation, such as NeRF, we opt for extracting an explicit representation that canonicalizes scenes across domains by employing the camera trajectory for sampling. Our goal is made possible by masking random patches from NeRF's radiance and density grid and employing a standard 3D Swin Transformer to reconstruct the masked patches. In doing so, the model can learn the semantic and spatial structure of complete scenes. We pretrain this representation at scale on our proposed curated posed-RGB data, totaling over 1.8 million images. Once pretrained, the encoder is used for effective 3D transfer learning. Our novel self-supervised pretraining for NeRFs, NeRF-MAE, scales remarkably well and improves performance on various challenging 3D tasks. Utilizing unlabeled posed 2D data for pretraining, NeRF-MAE significantly outperforms self-supervised 3D pretraining and NeRF scene understanding baselines on Front3D and ScanNet datasets with an absolute performance improvement of over 20% AP50 and 8% AP25 for 3D object detection.

Scaling has not yet been convincingly demonstrated for pure self-supervised learning from video. However, prior work has focused evaluations on semantic-related tasks x2013 action classification, ImageNet classification, etc. In this paper we focus on evaluating self-supervised learning on non-semantic vision tasks that are more spatial (3D) and temporal (+1D = 4D), such as camera pose estimation, point and object tracking, and depth estimation. We show that by learning from very large video datasets, masked auto-encoding (MAE) with transformer video models actually scales, consistently improving performance on these 4D tasks, as model size increases from 20M all the way to the largest by far reported self-supervised video model x2013 22B parameters. Rigorous apples-to-apples comparison with many recent image and video models demonstrates the benefits of scaling 4D representations.

We present an approach to pose object recognition as next token prediction. The idea is to apply a language decoder that auto-regressively predicts the text tokens from image embeddings to form labels. To ground this prediction process in auto-regression, we customize a non-causal attention mask for the decoder, incorporating two key features: modeling tokens from different labels to be independent, and treating image tokens as a prefix. This masking mechanism inspires an efficient method - one-shot sampling - to simultaneously sample tokens of multiple labels in parallel and rank generated labels by their probabilities during inference. To further enhance the efficiency, we propose a simple strategy to construct a compact decoder by simply discarding the intermediate blocks of a pretrained language model. This approach yields a decoder that matches the full model's performance while being notably more efficient. The code is available at https://github.com/kaiyuyue/nxtp

Masked image modelling (e.g., Masked AutoEncoder) and contrastive learning (e.g., Momentum Contrast) have shown impressive performance on unsupervised visual representation learning. This work presents Masked Contrastive Representation Learning (MACRL) for self-supervised visual pre-training. In particular, MACRL leverages the effectiveness of both masked image modelling and contrastive learning. We adopt an asymmetric setting for the siamese network (i.e., encoder-decoder structure in both branches), where one branch with higher mask ratio and stronger data augmentation, while the other adopts weaker data corruptions. We optimize a contrastive learning objective based on the learned features from the encoder in both branches. Furthermore, we minimize the L_1 reconstruction loss according to the decoders' outputs. In our experiments, MACRL presents superior results on various vision benchmarks, including CIFAR-10, CIFAR-100, Tiny-ImageNet, and two other ImageNet subsets. Our framework provides unified insights on self-supervised visual pre-training and future research.

To better support retrieval applications such as web search and question answering, growing effort is made to develop retrieval-oriented language models. Most of the existing works focus on improving the semantic representation capability for the contextualized embedding of [CLS] token. However, recent study shows that the ordinary tokens besides [CLS] may provide extra information, which helps to produce a better representation effect. As such, it's necessary to extend the current methods where all contextualized embeddings can be jointly pre-trained for the retrieval tasks. With this motivation, we propose a new pre-training method: duplex masked auto-encoder, a.k.a. DupMAE, which targets on improving the semantic representation capacity for the contextualized embeddings of both [CLS] and ordinary tokens. It introduces two decoding tasks: one is to reconstruct the original input sentence based on the [CLS] embedding, the other one is to minimize the bag-of-words loss (BoW) about the input sentence based on the entire ordinary tokens' embeddings. The two decoding losses are added up to train a unified encoding model. The embeddings from [CLS] and ordinary tokens, after dimension reduction and aggregation, are concatenated as one unified semantic representation for the input. DupMAE is simple but empirically competitive: with a small decoding cost, it substantially contributes to the model's representation capability and transferability, where remarkable improvements are achieved on MS MARCO and BEIR benchmarks.

This paper introduces an efficient and robust method for discovering interpretable circuits in large language models using discrete sparse autoencoders. Our approach addresses key limitations of existing techniques, namely computational complexity and sensitivity to hyperparameters. We propose training sparse autoencoders on carefully designed positive and negative examples, where the model can only correctly predict the next token for the positive examples. We hypothesise that learned representations of attention head outputs will signal when a head is engaged in specific computations. By discretising the learned representations into integer codes and measuring the overlap between codes unique to positive examples for each head, we enable direct identification of attention heads involved in circuits without the need for expensive ablations or architectural modifications. On three well-studied tasks - indirect object identification, greater-than comparisons, and docstring completion - the proposed method achieves higher precision and recall in recovering ground-truth circuits compared to state-of-the-art baselines, while reducing runtime from hours to seconds. Notably, we require only 5-10 text examples for each task to learn robust representations. Our findings highlight the promise of discrete sparse autoencoders for scalable and efficient mechanistic interpretability, offering a new direction for analysing the inner workings of large language models.

We present an efficient method of utilizing pretrained language models, where we learn selective binary masks for pretrained weights in lieu of modifying them through finetuning. Extensive evaluations of masking BERT and RoBERTa on a series of NLP tasks show that our masking scheme yields performance comparable to finetuning, yet has a much smaller memory footprint when several tasks need to be inferred simultaneously. Through intrinsic evaluations, we show that representations computed by masked language models encode information necessary for solving downstream tasks. Analyzing the loss landscape, we show that masking and finetuning produce models that reside in minima that can be connected by a line segment with nearly constant test accuracy. This confirms that masking can be utilized as an efficient alternative to finetuning.

Anomaly detection in medical images is an important yet challenging task due to the diversity of possible anomalies and the practical impossibility of collecting comprehensively annotated data sets. In this work, we tackle unsupervised medical anomaly detection proposing a modernized autoencoder-based framework, the Q-Former Autoencoder, that leverages state-of-the-art pretrained vision foundation models, such as DINO, DINOv2 and Masked Autoencoder. Instead of training encoders from scratch, we directly utilize frozen vision foundation models as feature extractors, enabling rich, multi-stage, high-level representations without domain-specific fine-tuning. We propose the usage of the Q-Former architecture as the bottleneck, which enables the control of the length of the reconstruction sequence, while efficiently aggregating multiscale features. Additionally, we incorporate a perceptual loss computed using features from a pretrained Masked Autoencoder, guiding the reconstruction towards semantically meaningful structures. Our framework is evaluated on four diverse medical anomaly detection benchmarks, achieving state-of-the-art results on BraTS2021, RESC, and RSNA. Our results highlight the potential of vision foundation model encoders, pretrained on natural images, to generalize effectively to medical image analysis tasks without further fine-tuning. We release the code and models at https://github.com/emirhanbayar/QFAE.

For learned image representations, basic autoencoders often produce blurry results. Reconstruction quality can be improved by incorporating additional penalties such as adversarial (GAN) and perceptual losses. Arguably, these approaches lack a principled interpretation. Concurrently, in generative settings diffusion has demonstrated a remarkable ability to create crisp, high quality results and has solid theoretical underpinnings (from variational inference to direct study as the Fisher Divergence). Our work combines autoencoder representation learning with diffusion and is, to our knowledge, the first to demonstrate the efficacy of jointly learning a continuous encoder and decoder under a diffusion-based loss. We demonstrate that this approach yields better reconstruction quality as compared to GAN-based autoencoders while being easier to tune. We also show that the resulting representation is easier to model with a latent diffusion model as compared to the representation obtained from a state-of-the-art GAN-based loss. Since our decoder is stochastic, it can generate details not encoded in the otherwise deterministic latent representation; we therefore name our approach "Sample what you can't compress", or SWYCC for short.

Training visual embeddings with labeled data supervision has been the de facto setup for representation learning in computer vision. Inspired by recent success of adopting masked image modeling (MIM) in self-supervised representation learning, we propose a simple yet effective setup that can easily integrate MIM into existing supervised training paradigms. In our design, in addition to the original classification task applied to a vision transformer image encoder, we add a shallow transformer-based decoder on top of the encoder and introduce an MIM task which tries to reconstruct image tokens based on masked image inputs. We show with minimal change in architecture and no overhead in inference that this setup is able to improve the quality of the learned representations for downstream tasks such as classification, image retrieval, and semantic segmentation. We conduct a comprehensive study and evaluation of our setup on public benchmarks. On ImageNet-1k, our ViT-B/14 model achieves 81.72% validation accuracy, 2.01% higher than the baseline model. On K-Nearest-Neighbor image retrieval evaluation with ImageNet-1k, the same model outperforms the baseline by 1.32%. We also show that this setup can be easily scaled to larger models and datasets. Code and checkpoints will be released.

In this paper we delve into the properties of transformers, attained through self-supervision, in the point cloud domain. Specifically, we evaluate the effectiveness of Masked Autoencoding as a pretraining scheme, and explore Momentum Contrast as an alternative. In our study we investigate the impact of data quantity on the learned features, and uncover similarities in the transformer's behavior across domains. Through comprehensive visualiations, we observe that the transformer learns to attend to semantically meaningful regions, indicating that pretraining leads to a better understanding of the underlying geometry. Moreover, we examine the finetuning process and its effect on the learned representations. Based on that, we devise an unfreezing strategy which consistently outperforms our baseline without introducing any other modifications to the model or the training pipeline, and achieve state-of-the-art results in the classification task among transformer models.

We present Masked Feature Prediction (MaskFeat) for self-supervised pre-training of video models. Our approach first randomly masks out a portion of the input sequence and then predicts the feature of the masked regions. We study five different types of features and find Histograms of Oriented Gradients (HOG), a hand-crafted feature descriptor, works particularly well in terms of both performance and efficiency. We observe that the local contrast normalization in HOG is essential for good results, which is in line with earlier work using HOG for visual recognition. Our approach can learn abundant visual knowledge and drive large-scale Transformer-based models. Without using extra model weights or supervision, MaskFeat pre-trained on unlabeled videos achieves unprecedented results of 86.7% with MViT-L on Kinetics-400, 88.3% on Kinetics-600, 80.4% on Kinetics-700, 39.8 mAP on AVA, and 75.0% on SSv2. MaskFeat further generalizes to image input, which can be interpreted as a video with a single frame and obtains competitive results on ImageNet.

Electroencephalography (EEG) signals provide critical insights for applications in disease diagnosis and healthcare. However, the scarcity of labeled EEG data poses a significant challenge. Foundation models offer a promising solution by leveraging large-scale unlabeled data through pre-training, enabling strong performance across diverse tasks. While both temporal dynamics and inter-channel relationships are vital for understanding EEG signals, existing EEG foundation models primarily focus on the former, overlooking the latter. To address this limitation, we propose Graph-Enhanced EEG Foundation Model (GEFM), a novel foundation model for EEG that integrates both temporal and inter-channel information. Our architecture combines Graph Neural Networks (GNNs), which effectively capture relational structures, with a masked autoencoder to enable efficient pre-training. We evaluated our approach using three downstream tasks and experimented with various GNN architectures. The results demonstrate that our proposed model, particularly when employing the GCN architecture with optimized configurations, consistently outperformed baseline methods across all tasks. These findings suggest that our model serves as a robust foundation model for EEG analysis.

Deep learning models have revolutionized various domains, with Multi-Layer Perceptrons (MLPs) being a cornerstone for tasks like data regression and image classification. However, a recent study has introduced Kolmogorov-Arnold Networks (KANs) as promising alternatives to MLPs, leveraging activation functions placed on edges rather than nodes. This structural shift aligns KANs closely with the Kolmogorov-Arnold representation theorem, potentially enhancing both model accuracy and interpretability. In this study, we explore the efficacy of KANs in the context of data representation via autoencoders, comparing their performance with traditional Convolutional Neural Networks (CNNs) on the MNIST, SVHN, and CIFAR-10 datasets. Our results demonstrate that KAN-based autoencoders achieve competitive performance in terms of reconstruction accuracy, thereby suggesting their viability as effective tools in data analysis tasks.

We present Deep Compression Autoencoder (DC-AE), a new family of autoencoder models for accelerating high-resolution diffusion models. Existing autoencoder models have demonstrated impressive results at a moderate spatial compression ratio (e.g., 8x), but fail to maintain satisfactory reconstruction accuracy for high spatial compression ratios (e.g., 64x). We address this challenge by introducing two key techniques: (1) Residual Autoencoding, where we design our models to learn residuals based on the space-to-channel transformed features to alleviate the optimization difficulty of high spatial-compression autoencoders; (2) Decoupled High-Resolution Adaptation, an efficient decoupled three-phases training strategy for mitigating the generalization penalty of high spatial-compression autoencoders. With these designs, we improve the autoencoder's spatial compression ratio up to 128 while maintaining the reconstruction quality. Applying our DC-AE to latent diffusion models, we achieve significant speedup without accuracy drop. For example, on ImageNet 512x512, our DC-AE provides 19.1x inference speedup and 17.9x training speedup on H100 GPU for UViT-H while achieving a better FID, compared with the widely used SD-VAE-f8 autoencoder. Our code is available at https://github.com/mit-han-lab/efficientvit.

Vision Transformers (ViTs) have delivered remarkable progress through global self-attention, yet their quadratic complexity can become prohibitive for high-resolution inputs. In this work, we present ViT-Linearizer, a cross-architecture distillation framework that transfers rich ViT representations into a linear-time, recurrent-style model. Our approach leverages 1) activation matching, an intermediate constraint that encourages student to align its token-wise dependencies with those produced by the teacher, and 2) masked prediction, a contextual reconstruction objective that requires the student to predict the teacher's representations for unseen (masked) tokens, to effectively distill the quadratic self-attention knowledge into the student while maintaining efficient complexity. Empirically, our method provides notable speedups particularly for high-resolution tasks, significantly addressing the hardware challenges in inference. Additionally, it also elevates Mamba-based architectures' performance on standard vision benchmarks, achieving a competitive 84.3% top-1 accuracy on ImageNet with a base-sized model. Our results underscore the good potential of RNN-based solutions for large-scale visual tasks, bridging the gap between theoretical efficiency and real-world practice.

Sparse Autoencoders (SAEs) have shown promise in improving the interpretability of neural network activations, but can learn features that are not features of the input, limiting their effectiveness. We propose Mutual Feature Regularization (MFR), a regularization technique for improving feature learning by encouraging SAEs trained in parallel to learn similar features. We motivate MFR by showing that features learned by multiple SAEs are more likely to correlate with features of the input. By training on synthetic data with known features of the input, we show that MFR can help SAEs learn those features, as we can directly compare the features learned by the SAE with the input features for the synthetic data. We then scale MFR to SAEs that are trained to denoise electroencephalography (EEG) data and SAEs that are trained to reconstruct GPT-2 Small activations. We show that MFR can improve the reconstruction loss of SAEs by up to 21.21\% on GPT-2 Small, and 6.67\% on EEG data. Our results suggest that the similarity between features learned by different SAEs can be leveraged to improve SAE training, thereby enhancing performance and the usefulness of SAEs for model interpretability.

Automated segmentation of brain tumors from 3D magnetic resonance images (MRIs) is necessary for the diagnosis, monitoring, and treatment planning of the disease. Manual delineation practices require anatomical knowledge, are expensive, time consuming and can be inaccurate due to human error. Here, we describe a semantic segmentation network for tumor subregion segmentation from 3D MRIs based on encoder-decoder architecture. Due to a limited training dataset size, a variational auto-encoder branch is added to reconstruct the input image itself in order to regularize the shared decoder and impose additional constraints on its layers. The current approach won 1st place in the BraTS 2018 challenge.