Rethinking the BERT-like Pretraining for DNA Sequences

With the success of large-scale pretraining in NLP, there is an increasing trend of applying it to the domain of life sciences. In particular, pretraining methods based on DNA sequences have garnered growing attention due to their potential to capture generic information about genes. However, existing pretraining methods for DNA sequences largely rely on direct adoptions of BERT pretraining from NLP, lacking a comprehensive understanding and a specifically tailored approach. To address this research gap, we first conducted a series of exploratory experiments and gained several insightful observations: 1) In the fine-tuning phase of downstream tasks, when using K-mer overlapping tokenization instead of K-mer non-overlapping tokenization, both overlapping and non-overlapping pretraining weights show consistent performance improvement.2) During the pre-training process, using K-mer overlapping tokenization quickly produces clear K-mer embeddings and reduces the loss to a very low level, while using K-mer non-overlapping tokenization results in less distinct embeddings and continuously decreases the loss. 3) Using overlapping tokenization causes the self-attention in the intermediate layers of pre-trained models to tend to overly focus on certain tokens, reflecting that these layers are not adequately optimized. In summary, overlapping tokenization can benefit the fine-tuning of downstream tasks but leads to inadequate pretraining with fast convergence. To unleash the pretraining potential, we introduce a novel approach called RandomMask, which gradually increases the task difficulty of BERT-like pretraining by continuously expanding its mask boundary, forcing the model to learn more knowledge. RandomMask is simple but effective, achieving top-tier performance across 26 datasets of 28 datasets spanning 7 downstream tasks.

Towards Fair and Comprehensive Comparisons for Image-Based 3D Object Detection

In this work, we build a modular-designed codebase, formulate strong training recipes, design an error diagnosis toolbox, and discuss current methods for image-based 3D object detection. In particular, different from other highly mature tasks, e.g., 2D object detection, the community of image-based 3D object detection is still evolving, where methods often adopt different training recipes and tricks resulting in unfair evaluations and comparisons. What is worse, these tricks may overwhelm their proposed designs in performance, even leading to wrong conclusions. To address this issue, we build a module-designed codebase and formulate unified training standards for the community. Furthermore, we also design an error diagnosis toolbox to measure the detailed characterization of detection models. Using these tools, we analyze current methods in-depth under varying settings and provide discussions for some open questions, e.g., discrepancies in conclusions on KITTI-3D and nuScenes datasets, which have led to different dominant methods for these datasets. We hope that this work will facilitate future research in image-based 3D object detection. Our codes will be released at \url{https://github.com/OpenGVLab/3dodi}

Beyond One-Preference-for-All: Multi-Objective Direct Preference Optimization

Language models (LMs), despite aligning well with an average labeler through reinforcement learning from human feedback (RLHF), may not universally suit diverse human preferences. Recent approaches therefore opt for customization by collecting multi-dimensional feedback and creating distinct rewards for each dimension (e.g., helpfulness, harmlessness, honesty). LMs can then be tailored to different preferences using multi-objective RL (MORL) with different reward weightings. Yet, RL fine-tuning is unstable and resource-heavy, especially for MORLHF with diverse and usually conflicting objectives. In this paper, we present Multi-Objective Direct Preference Optimization (MODPO), an RL-free algorithm that extends Direct Preference Optimization (DPO) for multiple alignment objectives. Essentially, MODPO trains different LMs to represent different collective reward models that combine all objectives with specific weightings. With a simple cross-entropy loss, the LMs optimized against the MODPO objective are analytically the exact solutions of the original MORLHF objective. Empirical results in safety alignment and long-form question answering confirm that MODPO matches or outperforms existing methods, efficiently producing a Pareto-optimal set of LMs that cater to diverse preferences with 3 times less computational resources compared with MORLHF.

Understanding Masked Autoencoders From a Local Contrastive Perspective

Masked AutoEncoder(MAE) has revolutionized the field of self-supervised learning with its simple yet effective masking and reconstruction strategies. However, despite achieving state-of-the-art performance across various downstream vision tasks, the underlying mechanisms that drive MAE's efficacy are less well-explored compared to the canonical contrastive learning paradigm. In this paper, we explore a new perspective to explain what truly contributes to the "rich hidden representations inside the MAE". Firstly, concerning MAE's generative pretraining pathway, with a unique encoder-decoder architecture to reconstruct images from aggressive masking, we conduct an in-depth analysis of the decoder's behaviors. We empirically find that MAE's decoder mainly learns local features with a limited receptive field, adhering to the well-known Locality Principle. Building upon this locality assumption, we propose a theoretical framework that reformulates the reconstruction-based MAE into a local region-level contrastive learning form for improved understanding. Furthermore, to substantiate the local contrastive nature of MAE, we introduce a Siamese architecture that combines the essence of MAE and contrastive learning without masking and explicit decoder, which sheds light on a unified and more flexible self-supervised learning framework.

RoleLLM: Benchmarking, Eliciting, and Enhancing Role-Playing Abilities of Large Language Models

The advent of Large Language Models (LLMs) has paved the way for complex tasks such as role-playing, which enhances user interactions by enabling models to imitate various characters. However, the closed-source nature of state-of-the-art LLMs and their general-purpose training limit role-playing optimization. In this paper, we introduce RoleLLM, a framework to benchmark, elicit, and enhance role-playing abilities in LLMs. RoleLLM comprises four stages: (1) Role Profile Construction for 100 roles; (2) Context-Based Instruction Generation (Context-Instruct) for role-specific knowledge extraction; (3) Role Prompting using GPT (RoleGPT) for speaking style imitation; and (4) Role-Conditioned Instruction Tuning (RoCIT) for fine-tuning open-source models along with role customization. By Context-Instruct and RoleGPT, we create RoleBench, the first systematic and fine-grained character-level benchmark dataset for role-playing with 168,093 samples. Moreover, RoCIT on RoleBench yields RoleLLaMA (English) and RoleGLM (Chinese), significantly enhancing role-playing abilities and even achieving comparable results with RoleGPT (using GPT-4).

NDC-Scene: Boost Monocular 3D Semantic Scene Completion in Normalized Device Coordinates Space

Monocular 3D Semantic Scene Completion (SSC) has garnered significant attention in recent years due to its potential to predict complex semantics and geometry shapes from a single image, requiring no 3D inputs. In this paper, we identify several critical issues in current state-of-the-art methods, including the Feature Ambiguity of projected 2D features in the ray to the 3D space, the Pose Ambiguity of the 3D convolution, and the Computation Imbalance in the 3D convolution across different depth levels. To address these problems, we devise a novel Normalized Device Coordinates scene completion network (NDC-Scene) that directly extends the 2D feature map to a Normalized Device Coordinates (NDC) space, rather than to the world space directly, through progressive restoration of the dimension of depth with deconvolution operations. Experiment results demonstrate that transferring the majority of computation from the target 3D space to the proposed normalized device coordinates space benefits monocular SSC tasks. Additionally, we design a Depth-Adaptive Dual Decoder to simultaneously upsample and fuse the 2D and 3D feature maps, further improving overall performance. Our extensive experiments confirm that the proposed method consistently outperforms state-of-the-art methods on both outdoor SemanticKITTI and indoor NYUv2 datasets. Our code are available at https://github.com/Jiawei-Yao0812/NDCScene.

Improving Multiple Sclerosis Lesion Segmentation Across Clinical Sites: A Federated Learning Approach with Noise-Resilient Training

Accurately measuring the evolution of Multiple Sclerosis (MS) with magnetic resonance imaging (MRI) critically informs understanding of disease progression and helps to direct therapeutic strategy. Deep learning models have shown promise for automatically segmenting MS lesions, but the scarcity of accurately annotated data hinders progress in this area. Obtaining sufficient data from a single clinical site is challenging and does not address the heterogeneous need for model robustness. Conversely, the collection of data from multiple sites introduces data privacy concerns and potential label noise due to varying annotation standards. To address this dilemma, we explore the use of the federated learning framework while considering label noise. Our approach enables collaboration among multiple clinical sites without compromising data privacy under a federated learning paradigm that incorporates a noise-robust training strategy based on label correction. Specifically, we introduce a Decoupled Hard Label Correction (DHLC) strategy that considers the imbalanced distribution and fuzzy boundaries of MS lesions, enabling the correction of false annotations based on prediction confidence. We also introduce a Centrally Enhanced Label Correction (CELC) strategy, which leverages the aggregated central model as a correction teacher for all sites, enhancing the reliability of the correction process. Extensive experiments conducted on two multi-site datasets demonstrate the effectiveness and robustness of our proposed methods, indicating their potential for clinical applications in multi-site collaborations.

DiffBIR: Towards Blind Image Restoration with Generative Diffusion Prior

We present DiffBIR, which leverages pretrained text-to-image diffusion models for blind image restoration problem. Our framework adopts a two-stage pipeline. In the first stage, we pretrain a restoration module across diversified degradations to improve generalization capability in real-world scenarios. The second stage leverages the generative ability of latent diffusion models, to achieve realistic image restoration. Specifically, we introduce an injective modulation sub-network -- LAControlNet for finetuning, while the pre-trained Stable Diffusion is to maintain its generative ability. Finally, we introduce a controllable module that allows users to balance quality and fidelity by introducing the latent image guidance in the denoising process during inference. Extensive experiments have demonstrated its superiority over state-of-the-art approaches for both blind image super-resolution and blind face restoration tasks on synthetic and real-world datasets. The code is available at https://github.com/XPixelGroup/DiffBIR.

Boosting Residual Networks with Group Knowledge

Recent research understands the residual networks from a new perspective of the implicit ensemble model. From this view, previous methods such as stochastic depth and stimulative training have further improved the performance of the residual network by sampling and training of its subnets. However, they both use the same supervision for all subnets of different capacities and neglect the valuable knowledge generated by subnets during training. In this manuscript, we mitigate the significant knowledge distillation gap caused by using the same kind of supervision and advocate leveraging the subnets to provide diverse knowledge. Based on this motivation, we propose a group knowledge based training framework for boosting the performance of residual networks. Specifically, we implicitly divide all subnets into hierarchical groups by subnet-in-subnet sampling, aggregate the knowledge of different subnets in each group during training, and exploit upper-level group knowledge to supervise lower-level subnet groups. Meanwhile, We also develop a subnet sampling strategy that naturally samples larger subnets, which are found to be more helpful than smaller subnets in boosting performance for hierarchical groups. Compared with typical subnet training and other methods, our method achieves the best efficiency and performance trade-offs on multiple datasets and network structures. The code will be released soon.

Experts Weights Averaging: A New General Training Scheme for Vision Transformers

Structural re-parameterization is a general training scheme for Convolutional Neural Networks (CNNs), which achieves performance improvement without increasing inference cost. As Vision Transformers (ViTs) are gradually surpassing CNNs in various visual tasks, one may question: if a training scheme specifically for ViTs exists that can also achieve performance improvement without increasing inference cost? Recently, Mixture-of-Experts (MoE) has attracted increasing attention, as it can efficiently scale up the capacity of Transformers at a fixed cost through sparsely activated experts. Considering that MoE can also be viewed as a multi-branch structure, can we utilize MoE to implement a ViT training scheme similar to structural re-parameterization? In this paper, we affirmatively answer these questions, with a new general training strategy for ViTs. Specifically, we decouple the training and inference phases of ViTs. During training, we replace some Feed-Forward Networks (FFNs) of the ViT with specially designed, more efficient MoEs that assign tokens to experts by random uniform partition, and perform Experts Weights Averaging (EWA) on these MoEs at the end of each iteration. After training, we convert each MoE into an FFN by averaging the experts, transforming the model back into original ViT for inference. We further provide a theoretical analysis to show why and how it works. Comprehensive experiments across various 2D and 3D visual tasks, ViT architectures, and datasets validate the effectiveness and generalizability of the proposed training scheme. Besides, our training scheme can also be applied to improve performance when fine-tuning ViTs. Lastly, but equally important, the proposed EWA technique can significantly improve the effectiveness of naive MoE in various 2D visual small datasets and 3D visual tasks.