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SubscribeProteinRPN: Towards Accurate Protein Function Prediction with Graph-Based Region Proposals
Protein function prediction is a crucial task in bioinformatics, with significant implications for understanding biological processes and disease mechanisms. While the relationship between sequence and function has been extensively explored, translating protein structure to function continues to present substantial challenges. Various models, particularly, CNN and graph-based deep learning approaches that integrate structural and functional data, have been proposed to address these challenges. However, these methods often fall short in elucidating the functional significance of key residues essential for protein functionality, as they predominantly adopt a retrospective perspective, leading to suboptimal performance. Inspired by region proposal networks in computer vision, we introduce the Protein Region Proposal Network (ProteinRPN) for accurate protein function prediction. Specifically, the region proposal module component of ProteinRPN identifies potential functional regions (anchors) which are refined through the hierarchy-aware node drop pooling layer favoring nodes with defined secondary structures and spatial proximity. The representations of the predicted functional nodes are enriched using attention mechanisms and subsequently fed into a Graph Multiset Transformer, which is trained with supervised contrastive (SupCon) and InfoNCE losses on perturbed protein structures. Our model demonstrates significant improvements in predicting Gene Ontology (GO) terms, effectively localizing functional residues within protein structures. The proposed framework provides a robust, scalable solution for protein function annotation, advancing the understanding of protein structure-function relationships in computational biology.
Dense-Captioning Events in Videos
Most natural videos contain numerous events. For example, in a video of a "man playing a piano", the video might also contain "another man dancing" or "a crowd clapping". We introduce the task of dense-captioning events, which involves both detecting and describing events in a video. We propose a new model that is able to identify all events in a single pass of the video while simultaneously describing the detected events with natural language. Our model introduces a variant of an existing proposal module that is designed to capture both short as well as long events that span minutes. To capture the dependencies between the events in a video, our model introduces a new captioning module that uses contextual information from past and future events to jointly describe all events. We also introduce ActivityNet Captions, a large-scale benchmark for dense-captioning events. ActivityNet Captions contains 20k videos amounting to 849 video hours with 100k total descriptions, each with it's unique start and end time. Finally, we report performances of our model for dense-captioning events, video retrieval and localization.
Drive&Segment: Unsupervised Semantic Segmentation of Urban Scenes via Cross-modal Distillation
This work investigates learning pixel-wise semantic image segmentation in urban scenes without any manual annotation, just from the raw non-curated data collected by cars which, equipped with cameras and LiDAR sensors, drive around a city. Our contributions are threefold. First, we propose a novel method for cross-modal unsupervised learning of semantic image segmentation by leveraging synchronized LiDAR and image data. The key ingredient of our method is the use of an object proposal module that analyzes the LiDAR point cloud to obtain proposals for spatially consistent objects. Second, we show that these 3D object proposals can be aligned with the input images and reliably clustered into semantically meaningful pseudo-classes. Finally, we develop a cross-modal distillation approach that leverages image data partially annotated with the resulting pseudo-classes to train a transformer-based model for image semantic segmentation. We show the generalization capabilities of our method by testing on four different testing datasets (Cityscapes, Dark Zurich, Nighttime Driving and ACDC) without any finetuning, and demonstrate significant improvements compared to the current state of the art on this problem. See project webpage https://vobecant.github.io/DriveAndSegment/ for the code and more.
VLANet: Video-Language Alignment Network for Weakly-Supervised Video Moment Retrieval
Video Moment Retrieval (VMR) is a task to localize the temporal moment in untrimmed video specified by natural language query. For VMR, several methods that require full supervision for training have been proposed. Unfortunately, acquiring a large number of training videos with labeled temporal boundaries for each query is a labor-intensive process. This paper explores methods for performing VMR in a weakly-supervised manner (wVMR): training is performed without temporal moment labels but only with the text query that describes a segment of the video. Existing methods on wVMR generate multi-scale proposals and apply query-guided attention mechanisms to highlight the most relevant proposal. To leverage the weak supervision, contrastive learning is used which predicts higher scores for the correct video-query pairs than for the incorrect pairs. It has been observed that a large number of candidate proposals, coarse query representation, and one-way attention mechanism lead to blurry attention maps which limit the localization performance. To handle this issue, Video-Language Alignment Network (VLANet) is proposed that learns sharper attention by pruning out spurious candidate proposals and applying a multi-directional attention mechanism with fine-grained query representation. The Surrogate Proposal Selection module selects a proposal based on the proximity to the query in the joint embedding space, and thus substantially reduces candidate proposals which leads to lower computation load and sharper attention. Next, the Cascaded Cross-modal Attention module considers dense feature interactions and multi-directional attention flow to learn the multi-modal alignment. VLANet is trained end-to-end using contrastive loss which enforces semantically similar videos and queries to gather. The experiments show that the method achieves state-of-the-art performance on Charades-STA and DiDeMo datasets.
Screentone-Preserved Manga Retargeting
As a popular comic style, manga offers a unique impression by utilizing a rich set of bitonal patterns, or screentones, for illustration. However, screentones can easily be contaminated with visual-unpleasant aliasing and/or blurriness after resampling, which harms its visualization on displays of diverse resolutions. To address this problem, we propose the first manga retargeting method that synthesizes a rescaled manga image while retaining the screentone in each screened region. This is a non-trivial task as accurate region-wise segmentation remains challenging. Fortunately, the rescaled manga shares the same region-wise screentone correspondences with the original manga, which enables us to simplify the screentone synthesis problem as an anchor-based proposals selection and rearrangement problem. Specifically, we design a novel manga sampling strategy to generate aliasing-free screentone proposals, based on hierarchical grid-based anchors that connect the correspondences between the original and the target rescaled manga. Furthermore, a Recurrent Proposal Selection Module (RPSM) is proposed to adaptively integrate these proposals for target screentone synthesis. Besides, to deal with the translation insensitivity nature of screentones, we propose a translation-invariant screentone loss to facilitate the training convergence. Extensive qualitative and quantitative experiments are conducted to verify the effectiveness of our method, and notably compelling results are achieved compared to existing alternative techniques.
CPP-Net: Context-aware Polygon Proposal Network for Nucleus Segmentation
Nucleus segmentation is a challenging task due to the crowded distribution and blurry boundaries of nuclei. Recent approaches represent nuclei by means of polygons to differentiate between touching and overlapping nuclei and have accordingly achieved promising performance. Each polygon is represented by a set of centroid-to-boundary distances, which are in turn predicted by features of the centroid pixel for a single nucleus. However, using the centroid pixel alone does not provide sufficient contextual information for robust prediction and thus degrades the segmentation accuracy. To handle this problem, we propose a Context-aware Polygon Proposal Network (CPP-Net) for nucleus segmentation. First, we sample a point set rather than one single pixel within each cell for distance prediction. This strategy substantially enhances contextual information and thereby improves the robustness of the prediction. Second, we propose a Confidence-based Weighting Module, which adaptively fuses the predictions from the sampled point set. Third, we introduce a novel Shape-Aware Perceptual (SAP) loss that constrains the shape of the predicted polygons. Here, the SAP loss is based on an additional network that is pre-trained by means of mapping the centroid probability map and the pixel-to-boundary distance maps to a different nucleus representation. Extensive experiments justify the effectiveness of each component in the proposed CPP-Net. Finally, CPP-Net is found to achieve state-of-the-art performance on three publicly available databases, namely DSB2018, BBBC06, and PanNuke. Code of this paper is available at \url{https://github.com/csccsccsccsc/cpp-net
One More Step: A Versatile Plug-and-Play Module for Rectifying Diffusion Schedule Flaws and Enhancing Low-Frequency Controls
It is well known that many open-released foundational diffusion models have difficulty in generating images that substantially depart from average brightness, despite such images being present in the training data. This is due to an inconsistency: while denoising starts from pure Gaussian noise during inference, the training noise schedule retains residual data even in the final timestep distribution, due to difficulties in numerical conditioning in mainstream formulation, leading to unintended bias during inference. To mitigate this issue, certain epsilon-prediction models are combined with an ad-hoc offset-noise methodology. In parallel, some contemporary models have adopted zero-terminal SNR noise schedules together with v-prediction, which necessitate major alterations to pre-trained models. However, such changes risk destabilizing a large multitude of community-driven applications anchored on these pre-trained models. In light of this, our investigation revisits the fundamental causes, leading to our proposal of an innovative and principled remedy, called One More Step (OMS). By integrating a compact network and incorporating an additional simple yet effective step during inference, OMS elevates image fidelity and harmonizes the dichotomy between training and inference, while preserving original model parameters. Once trained, various pre-trained diffusion models with the same latent domain can share the same OMS module.
MSF: Motion-guided Sequential Fusion for Efficient 3D Object Detection from Point Cloud Sequences
Point cloud sequences are commonly used to accurately detect 3D objects in applications such as autonomous driving. Current top-performing multi-frame detectors mostly follow a Detect-and-Fuse framework, which extracts features from each frame of the sequence and fuses them to detect the objects in the current frame. However, this inevitably leads to redundant computation since adjacent frames are highly correlated. In this paper, we propose an efficient Motion-guided Sequential Fusion (MSF) method, which exploits the continuity of object motion to mine useful sequential contexts for object detection in the current frame. We first generate 3D proposals on the current frame and propagate them to preceding frames based on the estimated velocities. The points-of-interest are then pooled from the sequence and encoded as proposal features. A novel Bidirectional Feature Aggregation (BiFA) module is further proposed to facilitate the interactions of proposal features across frames. Besides, we optimize the point cloud pooling by a voxel-based sampling technique so that millions of points can be processed in several milliseconds. The proposed MSF method achieves not only better efficiency than other multi-frame detectors but also leading accuracy, with 83.12% and 78.30% mAP on the LEVEL1 and LEVEL2 test sets of Waymo Open Dataset, respectively. Codes can be found at https://github.com/skyhehe123/MSF.
Vision-and-Language Navigation Generative Pretrained Transformer
In the Vision-and-Language Navigation (VLN) field, agents are tasked with navigating real-world scenes guided by linguistic instructions. Enabling the agent to adhere to instructions throughout the process of navigation represents a significant challenge within the domain of VLN. To address this challenge, common approaches often rely on encoders to explicitly record past locations and actions, increasing model complexity and resource consumption. Our proposal, the Vision-and-Language Navigation Generative Pretrained Transformer (VLN-GPT), adopts a transformer decoder model (GPT2) to model trajectory sequence dependencies, bypassing the need for historical encoding modules. This method allows for direct historical information access through trajectory sequence, enhancing efficiency. Furthermore, our model separates the training process into offline pre-training with imitation learning and online fine-tuning with reinforcement learning. This distinction allows for more focused training objectives and improved performance. Performance assessments on the VLN dataset reveal that VLN-GPT surpasses complex state-of-the-art encoder-based models.
ZEETAD: Adapting Pretrained Vision-Language Model for Zero-Shot End-to-End Temporal Action Detection
Temporal action detection (TAD) involves the localization and classification of action instances within untrimmed videos. While standard TAD follows fully supervised learning with closed-set setting on large training data, recent zero-shot TAD methods showcase the promising open-set setting by leveraging large-scale contrastive visual-language (ViL) pretrained models. However, existing zero-shot TAD methods have limitations on how to properly construct the strong relationship between two interdependent tasks of localization and classification and adapt ViL model to video understanding. In this work, we present ZEETAD, featuring two modules: dual-localization and zero-shot proposal classification. The former is a Transformer-based module that detects action events while selectively collecting crucial semantic embeddings for later recognition. The latter one, CLIP-based module, generates semantic embeddings from text and frame inputs for each temporal unit. Additionally, we enhance discriminative capability on unseen classes by minimally updating the frozen CLIP encoder with lightweight adapters. Extensive experiments on THUMOS14 and ActivityNet-1.3 datasets demonstrate our approach's superior performance in zero-shot TAD and effective knowledge transfer from ViL models to unseen action categories.
Monocular 3D Object Detection with Bounding Box Denoising in 3D by Perceiver
The main challenge of monocular 3D object detection is the accurate localization of 3D center. Motivated by a new and strong observation that this challenge can be remedied by a 3D-space local-grid search scheme in an ideal case, we propose a stage-wise approach, which combines the information flow from 2D-to-3D (3D bounding box proposal generation with a single 2D image) and 3D-to-2D (proposal verification by denoising with 3D-to-2D contexts) in a top-down manner. Specifically, we first obtain initial proposals from off-the-shelf backbone monocular 3D detectors. Then, we generate a 3D anchor space by local-grid sampling from the initial proposals. Finally, we perform 3D bounding box denoising at the 3D-to-2D proposal verification stage. To effectively learn discriminative features for denoising highly overlapped proposals, this paper presents a method of using the Perceiver I/O model to fuse the 3D-to-2D geometric information and the 2D appearance information. With the encoded latent representation of a proposal, the verification head is implemented with a self-attention module. Our method, named as MonoXiver, is generic and can be easily adapted to any backbone monocular 3D detectors. Experimental results on the well-established KITTI dataset and the challenging large-scale Waymo dataset show that MonoXiver consistently achieves improvement with limited computation overhead.
Spatial Self-Distillation for Object Detection with Inaccurate Bounding Boxes
Object detection via inaccurate bounding boxes supervision has boosted a broad interest due to the expensive high-quality annotation data or the occasional inevitability of low annotation quality (\eg tiny objects). The previous works usually utilize multiple instance learning (MIL), which highly depends on category information, to select and refine a low-quality box. Those methods suffer from object drift, group prediction and part domination problems without exploring spatial information. In this paper, we heuristically propose a Spatial Self-Distillation based Object Detector (SSD-Det) to mine spatial information to refine the inaccurate box in a self-distillation fashion. SSD-Det utilizes a Spatial Position Self-Distillation (SPSD) module to exploit spatial information and an interactive structure to combine spatial information and category information, thus constructing a high-quality proposal bag. To further improve the selection procedure, a Spatial Identity Self-Distillation (SISD) module is introduced in SSD-Det to obtain spatial confidence to help select the best proposals. Experiments on MS-COCO and VOC datasets with noisy box annotation verify our method's effectiveness and achieve state-of-the-art performance. The code is available at https://github.com/ucas-vg/PointTinyBenchmark/tree/SSD-Det.
CAGroup3D: Class-Aware Grouping for 3D Object Detection on Point Clouds
We present a novel two-stage fully sparse convolutional 3D object detection framework, named CAGroup3D. Our proposed method first generates some high-quality 3D proposals by leveraging the class-aware local group strategy on the object surface voxels with the same semantic predictions, which considers semantic consistency and diverse locality abandoned in previous bottom-up approaches. Then, to recover the features of missed voxels due to incorrect voxel-wise segmentation, we build a fully sparse convolutional RoI pooling module to directly aggregate fine-grained spatial information from backbone for further proposal refinement. It is memory-and-computation efficient and can better encode the geometry-specific features of each 3D proposal. Our model achieves state-of-the-art 3D detection performance with remarkable gains of +3.6\% on ScanNet V2 and +2.6\% on SUN RGB-D in term of [email protected]. Code will be available at https://github.com/Haiyang-W/CAGroup3D.
Locate Then Generate: Bridging Vision and Language with Bounding Box for Scene-Text VQA
In this paper, we propose a novel multi-modal framework for Scene Text Visual Question Answering (STVQA), which requires models to read scene text in images for question answering. Apart from text or visual objects, which could exist independently, scene text naturally links text and visual modalities together by conveying linguistic semantics while being a visual object in an image simultaneously. Different to conventional STVQA models which take the linguistic semantics and visual semantics in scene text as two separate features, in this paper, we propose a paradigm of "Locate Then Generate" (LTG), which explicitly unifies this two semantics with the spatial bounding box as a bridge connecting them. Specifically, at first, LTG locates the region in an image that may contain the answer words with an answer location module (ALM) consisting of a region proposal network and a language refinement network, both of which can transform to each other with one-to-one mapping via the scene text bounding box. Next, given the answer words selected by ALM, LTG generates a readable answer sequence with an answer generation module (AGM) based on a pre-trained language model. As a benefit of the explicit alignment of the visual and linguistic semantics, even without any scene text based pre-training tasks, LTG can boost the absolute accuracy by +6.06% and +6.92% on the TextVQA dataset and the ST-VQA dataset respectively, compared with a non-pre-training baseline. We further demonstrate that LTG effectively unifies visual and text modalities through the spatial bounding box connection, which is underappreciated in previous methods.
SciPIP: An LLM-based Scientific Paper Idea Proposer
The exponential growth of knowledge and the increasing complexity of interdisciplinary research pose significant challenges for researchers, including information overload and difficulties in exploring novel ideas. The advancements in large language models (LLMs), such as GPT-4, have shown great potential in enhancing idea proposals, but how to effectively utilize large models for reasonable idea proposal has not been thoroughly explored. This paper proposes a scientific paper idea proposer (SciPIP). Based on a user-provided research background, SciPIP retrieves helpful papers from a literature database while leveraging the capabilities of LLMs to generate more novel and feasible ideas. To this end, 1) we construct a literature retrieval database, extracting lots of papers' multi-dimension information for fast access. Then, a literature retrieval method based on semantics, entity, and citation co-occurrences is proposed to search relevant literature from multiple aspects based on the user-provided background. 2) After literature retrieval, we introduce dual-path idea proposal strategies, where one path infers solutions from the retrieved literature and the other path generates original ideas through model brainstorming. We then combine the two to achieve a good balance between feasibility and originality. Through extensive experiments on the natural language processing (NLP) field, we demonstrate that SciPIP can retrieve citations similar to those of existing top conference papers and generate many ideas consistent with them. Additionally, we evaluate the originality of other ideas generated by SciPIP using large language models, further validating the effectiveness of our proposed method. The code and the database are released at https://github.com/cheerss/SciPIP.
RecAgent: A Novel Simulation Paradigm for Recommender Systems
Recommender system has deeply revolutionized people's daily life and production, bringing a large amount of business value. In the recommendation domain, simulation and real data-based studies are two typical research paradigms, with each having different advantages. Previously, real data-based studies occupy more important positions, since accurately simulating the user preference is quite difficult. Recently, large language models (LLM) have shown great potential to achieve human-like intelligence, which provides new opportunities to overcome the shortcomings of simulation-based studies and thus highlight their advantages, such as much more application scenarios and cheaper data acquisition strategies. To shed lights on this direction, in this paper, we introduce an LLM-based recommender simulator called RecAgent. Our simulator is composed of two modules: (1) the user module and (2) the recommender module. The user module can browse the recommendation website, communicate with other users and broadcast messages on the social media. The recommender module is designed to provide search or recommendation lists to the users, and one can design different models to implement the recommender. All the users take actions based on LLMs, and can freely evolve like in the real world. We present several case studies to demonstrate that the users in our simulator can indeed behave in a reasonable manner as expected. Our project has been released at https://github.com/RUC-GSAI/YuLan-Rec.
Repository-Level Prompt Generation for Large Language Models of Code
With the success of large language models (LLMs) of code and their use as code assistants (e.g. Codex used in GitHub Copilot), techniques for introducing domain-specific knowledge in the prompt design process become important. In this work, we propose a framework called Repo-Level Prompt Generator that learns to generate example-specific prompts using prompt proposals. The prompt proposals take context from the entire repository, thereby incorporating both the structure of the repository and the context from other relevant files (e.g. imports, parent class files). Our technique doesn't require any access to the weights of the LLM, making it applicable in cases where we only have black-box access to the LLM. We conduct experiments on the task of single-line code-autocompletion using code repositories taken from Google Code archives. We demonstrate that an oracle constructed from our prompt proposals gives a remarkably high relative improvement of 36% over Codex, showing the quality of these proposals. Further, we show that when we train a model to predict a prompt proposal, we can achieve significant performance gains over Codex and other baselines. We release our code, data, and trained checkpoints at: https://github.com/shrivastavadisha/repo_level_prompt_generation.
Principled Instructions Are All You Need for Questioning LLaMA-1/2, GPT-3.5/4
This paper introduces 26 guiding principles designed to streamline the process of querying and prompting large language models. Our goal is to simplify the underlying concepts of formulating questions for various scales of large language models, examining their abilities, and enhancing user comprehension on the behaviors of different scales of large language models when feeding into different prompts. Extensive experiments are conducted on LLaMA-1/2 (7B, 13B and 70B), GPT-3.5/4 to verify the effectiveness of the proposed principles on instructions and prompts design. We hope that this work can provide a better guide for researchers working on the prompting of large language models. Project page is available at https://github.com/VILA-Lab/ATLAS.
MoPS: Modular Story Premise Synthesis for Open-Ended Automatic Story Generation
A story premise succinctly defines a story's main idea, foundation, and trajectory. It serves as the initial trigger in automatic story generation. Existing sources of story premises are limited by a lack of diversity, uneven quality, and high costs that make them difficult to scale. In response, we introduce Modular Story Premise Synthesis (MoPS) which breaks down story premises into modules like background and persona for automated design and generation. MoPS consists of three phases: (1) Precollect a consistent set of candidates for each module to form a nested dictionary. (2) Extract a key path from the nested dictionary as the premise design. (3) Instruct an LLM to integrate the design into a coherent premise sentence. Thorough evaluations demonstrate that our synthesized premises excel in diversity, fascination, completeness, and originality compared to those induced from large language models and captured from public story datasets. Similarly, the extended novels and scripts generated from our premises also exhibit higher quality. In supplementary materials, we provide the MoPS code suite, along with 7.6k generated premises and 1k extended stories. Code: https://github.com/GAIR-NLP/MoPS.
SCREWS: A Modular Framework for Reasoning with Revisions
Large language models (LLMs) can improve their accuracy on various tasks through iteratively refining and revising their output based on feedback. We observe that these revisions can introduce errors, in which case it is better to roll back to a previous result. Further, revisions are typically homogeneous: they use the same reasoning method that produced the initial answer, which may not correct errors. To enable exploration in this space, we present SCREWS, a modular framework for reasoning with revisions. It is comprised of three main modules: Sampling, Conditional Resampling, and Selection, each consisting of sub-modules that can be hand-selected per task. We show that SCREWS not only unifies several previous approaches under a common framework, but also reveals several novel strategies for identifying improved reasoning chains. We evaluate our framework with state-of-the-art LLMs (ChatGPT and GPT-4) on a diverse set of reasoning tasks and uncover useful new reasoning strategies for each: arithmetic word problems, multi-hop question answering, and code debugging. Heterogeneous revision strategies prove to be important, as does selection between original and revised candidates.
NeMo: a toolkit for building AI applications using Neural Modules
NeMo (Neural Modules) is a Python framework-agnostic toolkit for creating AI applications through re-usability, abstraction, and composition. NeMo is built around neural modules, conceptual blocks of neural networks that take typed inputs and produce typed outputs. Such modules typically represent data layers, encoders, decoders, language models, loss functions, or methods of combining activations. NeMo makes it easy to combine and re-use these building blocks while providing a level of semantic correctness checking via its neural type system. The toolkit comes with extendable collections of pre-built modules for automatic speech recognition and natural language processing. Furthermore, NeMo provides built-in support for distributed training and mixed precision on latest NVIDIA GPUs. NeMo is open-source https://github.com/NVIDIA/NeMo
The BigCode Project Governance Card
This document serves as an overview of the different mechanisms and areas of governance in the BigCode project. It aims to support transparency by providing relevant information about choices that were made during the project to the broader public, and to serve as an example of intentional governance of an open research project that future endeavors can leverage to shape their own approach. The first section, Project Structure, covers the project organization, its stated goals and values, its internal decision processes, and its funding and resources. The second section, Data and Model Governance, covers decisions relating to the questions of data subject consent, privacy, and model release.
Spacerini: Plug-and-play Search Engines with Pyserini and Hugging Face
We present Spacerini, a modular framework for seamless building and deployment of interactive search applications, designed to facilitate the qualitative analysis of large scale research datasets. Spacerini integrates features from both the Pyserini toolkit and the Hugging Face ecosystem to ease the indexing text collections and deploy them as search engines for ad-hoc exploration and to make the retrieval of relevant data points quick and efficient. The user-friendly interface enables searching through massive datasets in a no-code fashion, making Spacerini broadly accessible to anyone looking to qualitatively audit their text collections. This is useful both to IR~researchers aiming to demonstrate the capabilities of their indexes in a simple and interactive way, and to NLP~researchers looking to better understand and audit the failure modes of large language models. The framework is open source and available on GitHub: https://github.com/castorini/hf-spacerini, and includes utilities to load, pre-process, index, and deploy local and web search applications. A portfolio of applications created with Spacerini for a multitude of use cases can be found by visiting https://hf.co/spacerini.
Towards Human-Level Text Coding with LLMs: The Case of Fatherhood Roles in Public Policy Documents
Recent advances in large language models (LLMs) like GPT-3.5 and GPT-4 promise automation with better results and less programming, opening up new opportunities for text analysis in political science. In this study, we evaluate LLMs on three original coding tasks involving typical complexities encountered in political science settings: a non-English language, legal and political jargon, and complex labels based on abstract constructs. Along the paper, we propose a practical workflow to optimize the choice of the model and the prompt. We find that the best prompting strategy consists of providing the LLMs with a detailed codebook, as the one provided to human coders. In this setting, an LLM can be as good as or possibly better than a human annotator while being much faster, considerably cheaper, and much easier to scale to large amounts of text. We also provide a comparison of GPT and popular open-source LLMs, discussing the trade-offs in the model's choice. Our software allows LLMs to be easily used as annotators and is publicly available: https://github.com/lorelupo/pappa.
Can Large Language Models Unlock Novel Scientific Research Ideas?
"An idea is nothing more nor less than a new combination of old elements" (Young, J.W.). The widespread adoption of Large Language Models (LLMs) and publicly available ChatGPT have marked a significant turning point in the integration of Artificial Intelligence (AI) into people's everyday lives. This study explores the capability of LLMs in generating novel research ideas based on information from research papers. We conduct a thorough examination of 4 LLMs in five domains (e.g., Chemistry, Computer, Economics, Medical, and Physics). We found that the future research ideas generated by Claude-2 and GPT-4 are more aligned with the author's perspective than GPT-3.5 and Gemini. We also found that Claude-2 generates more diverse future research ideas than GPT-4, GPT-3.5, and Gemini 1.0. We further performed a human evaluation of the novelty, relevancy, and feasibility of the generated future research ideas. This investigation offers insights into the evolving role of LLMs in idea generation, highlighting both its capability and limitations. Our work contributes to the ongoing efforts in evaluating and utilizing language models for generating future research ideas. We make our datasets and codes publicly available.
LitLLMs, LLMs for Literature Review: Are we there yet?
Literature reviews are an essential component of scientific research, but they remain time-intensive and challenging to write, especially due to the recent influx of research papers. This paper explores the zero-shot abilities of recent Large Language Models (LLMs) in assisting with the writing of literature reviews based on an abstract. We decompose the task into two components: 1. Retrieving related works given a query abstract, and 2. Writing a literature review based on the retrieved results. We analyze how effective LLMs are for both components. For retrieval, we introduce a novel two-step search strategy that first uses an LLM to extract meaningful keywords from the abstract of a paper and then retrieves potentially relevant papers by querying an external knowledge base. Additionally, we study a prompting-based re-ranking mechanism with attribution and show that re-ranking doubles the normalized recall compared to naive search methods, while providing insights into the LLM's decision-making process. In the generation phase, we propose a two-step approach that first outlines a plan for the review and then executes steps in the plan to generate the actual review. To evaluate different LLM-based literature review methods, we create test sets from arXiv papers using a protocol designed for rolling use with newly released LLMs to avoid test set contamination in zero-shot evaluations. We release this evaluation protocol to promote additional research and development in this regard. Our empirical results suggest that LLMs show promising potential for writing literature reviews when the task is decomposed into smaller components of retrieval and planning. Our project page including a demonstration system and toolkit can be accessed here: https://litllm.github.io.
Prompt Design and Engineering: Introduction and Advanced Methods
Prompt design and engineering has become an important discipline in just the past few months. In this paper, we provide an introduction to the main concepts and design approaches. We also provide more advanced techniques all the way to those needed to design LLM-based agents. We finish by providing a list of existing tools for prompt engineering.
Towards Unified Conversational Recommender Systems via Knowledge-Enhanced Prompt Learning
Conversational recommender systems (CRS) aim to proactively elicit user preference and recommend high-quality items through natural language conversations. Typically, a CRS consists of a recommendation module to predict preferred items for users and a conversation module to generate appropriate responses. To develop an effective CRS, it is essential to seamlessly integrate the two modules. Existing works either design semantic alignment strategies, or share knowledge resources and representations between the two modules. However, these approaches still rely on different architectures or techniques to develop the two modules, making it difficult for effective module integration. To address this problem, we propose a unified CRS model named UniCRS based on knowledge-enhanced prompt learning. Our approach unifies the recommendation and conversation subtasks into the prompt learning paradigm, and utilizes knowledge-enhanced prompts based on a fixed pre-trained language model (PLM) to fulfill both subtasks in a unified approach. In the prompt design, we include fused knowledge representations, task-specific soft tokens, and the dialogue context, which can provide sufficient contextual information to adapt the PLM for the CRS task. Besides, for the recommendation subtask, we also incorporate the generated response template as an important part of the prompt, to enhance the information interaction between the two subtasks. Extensive experiments on two public CRS datasets have demonstrated the effectiveness of our approach.
GEMRec: Towards Generative Model Recommendation
Recommender Systems are built to retrieve relevant items to satisfy users' information needs. The candidate corpus usually consists of a finite set of items that are ready to be served, such as videos, products, or articles. With recent advances in Generative AI such as GPT and Diffusion models, a new form of recommendation task is yet to be explored where items are to be created by generative models with personalized prompts. Taking image generation as an example, with a single prompt from the user and access to a generative model, it is possible to generate hundreds of new images in a few minutes. How shall we attain personalization in the presence of "infinite" items? In this preliminary study, we propose a two-stage framework, namely Prompt-Model Retrieval and Generated Item Ranking, to approach this new task formulation. We release GEMRec-18K, a prompt-model interaction dataset with 18K images generated by 200 publicly-available generative models paired with a diverse set of 90 textual prompts. Our findings demonstrate the promise of generative model recommendation as a novel personalization problem and the limitations of existing evaluation metrics. We highlight future directions for the RecSys community to advance towards generative recommender systems. Our code and dataset are available at https://github.com/MAPS-research/GEMRec.
Multi-Draft Speculative Sampling: Canonical Architectures and Theoretical Limits
We consider multi-draft speculative sampling, where the proposal sequences are sampled independently from different draft models. At each step, a token-level draft selection scheme takes a list of valid tokens as input and produces an output token whose distribution matches that of the target model. Previous works have demonstrated that the optimal scheme (which maximizes the probability of accepting one of the input tokens) can be cast as a solution to a linear program. In this work we show that the optimal scheme can be decomposed into a two-step solution: in the first step an importance sampling (IS) type scheme is used to select one intermediate token; in the second step (single-draft) speculative sampling is applied to generate the output token. For the case of two identical draft models we further 1) establish a necessary and sufficient condition on the distributions of the target and draft models for the acceptance probability to equal one and 2) provide an explicit expression for the optimal acceptance probability. Our theoretical analysis also motives a new class of token-level selection scheme based on weighted importance sampling. Our experimental results demonstrate consistent improvements in the achievable block efficiency and token rates over baseline schemes in a number of scenarios.
PromptSuite: A Task-Agnostic Framework for Multi-Prompt Generation
Evaluating LLMs with a single prompt has proven unreliable, with small changes leading to significant performance differences. However, generating the prompt variations needed for a more robust multi-prompt evaluation is challenging, limiting its adoption in practice. To address this, we introduce PromptSuite, a framework that enables the automatic generation of various prompts. PromptSuite is flexible - working out of the box on a wide range of tasks and benchmarks. It follows a modular prompt design, allowing controlled perturbations to each component, and is extensible, supporting the addition of new components and perturbation types. Through a series of case studies, we show that PromptSuite provides meaningful variations to support strong evaluation practices. It is available through both a Python API: https://github.com/eliyahabba/PromptSuite, and a user-friendly web interface: https://promptsuite.streamlit.app/
Experimenting with Multi-Agent Software Development: Towards a Unified Platform
Large language models are redefining software engineering by implementing AI-powered techniques throughout the whole software development process, including requirement gathering, software architecture, code generation, testing, and deployment. However, it is still difficult to develop a cohesive platform that consistently produces the best outcomes across all stages. The objective of this study is to develop a unified platform that utilizes multiple artificial intelligence agents to automate the process of transforming user requirements into well-organized deliverables. These deliverables include user stories, prioritization, and UML sequence diagrams, along with the modular approach to APIs, unit tests, and end-to-end tests. Additionally, the platform will organize tasks, perform security and compliance, and suggest design patterns and improvements for non-functional requirements. We allow users to control and manage each phase according to their preferences. In addition, the platform provides security and compliance checks following European standards and proposes design optimizations. We use multiple models, such as GPT-3.5, GPT-4, and Llama3 to enable to generation of modular code as per user choice. The research also highlights the limitations and future research discussions to overall improve the software development life cycle. The source code for our uniform platform is hosted on GitHub, enabling additional experimentation and supporting both research and practical uses. \end
Frustrated with Code Quality Issues? LLMs can Help!
As software projects progress, quality of code assumes paramount importance as it affects reliability, maintainability and security of software. For this reason, static analysis tools are used in developer workflows to flag code quality issues. However, developers need to spend extra efforts to revise their code to improve code quality based on the tool findings. In this work, we investigate the use of (instruction-following) large language models (LLMs) to assist developers in revising code to resolve code quality issues. We present a tool, CORE (short for COde REvisions), architected using a pair of LLMs organized as a duo comprised of a proposer and a ranker. Providers of static analysis tools recommend ways to mitigate the tool warnings and developers follow them to revise their code. The proposer LLM of CORE takes the same set of recommendations and applies them to generate candidate code revisions. The candidates which pass the static quality checks are retained. However, the LLM may introduce subtle, unintended functionality changes which may go un-detected by the static analysis. The ranker LLM evaluates the changes made by the proposer using a rubric that closely follows the acceptance criteria that a developer would enforce. CORE uses the scores assigned by the ranker LLM to rank the candidate revisions before presenting them to the developer. CORE could revise 59.2% Python files (across 52 quality checks) so that they pass scrutiny by both a tool and a human reviewer. The ranker LLM is able to reduce false positives by 25.8% in these cases. CORE produced revisions that passed the static analysis tool in 76.8% Java files (across 10 quality checks) comparable to 78.3% of a specialized program repair tool, with significantly much less engineering efforts.
ReviewerGPT? An Exploratory Study on Using Large Language Models for Paper Reviewing
Given the rapid ascent of large language models (LLMs), we study the question: (How) can large language models help in reviewing of scientific papers or proposals? We first conduct some pilot studies where we find that (i) GPT-4 outperforms other LLMs (Bard, Vicuna, Koala, Alpaca, LLaMa, Dolly, OpenAssistant, StableLM), and (ii) prompting with a specific question (e.g., to identify errors) outperforms prompting to simply write a review. With these insights, we study the use of LLMs (specifically, GPT-4) for three tasks: 1. Identifying errors: We construct 13 short computer science papers each with a deliberately inserted error, and ask the LLM to check for the correctness of these papers. We observe that the LLM finds errors in 7 of them, spanning both mathematical and conceptual errors. 2. Verifying checklists: We task the LLM to verify 16 closed-ended checklist questions in the respective sections of 15 NeurIPS 2022 papers. We find that across 119 {checklist question, paper} pairs, the LLM had an 86.6% accuracy. 3. Choosing the "better" paper: We generate 10 pairs of abstracts, deliberately designing each pair in such a way that one abstract was clearly superior than the other. The LLM, however, struggled to discern these relatively straightforward distinctions accurately, committing errors in its evaluations for 6 out of the 10 pairs. Based on these experiments, we think that LLMs have a promising use as reviewing assistants for specific reviewing tasks, but not (yet) for complete evaluations of papers or proposals.
AI-Driven Scholarly Peer Review via Persistent Workflow Prompting, Meta-Prompting, and Meta-Reasoning
Critical peer review of scientific manuscripts presents a significant challenge for Large Language Models (LLMs), partly due to data limitations and the complexity of expert reasoning. This report introduces Persistent Workflow Prompting (PWP), a potentially broadly applicable prompt engineering methodology designed to bridge this gap using standard LLM chat interfaces (zero-code, no APIs). We present a proof-of-concept PWP prompt for the critical analysis of experimental chemistry manuscripts, featuring a hierarchical, modular architecture (structured via Markdown) that defines detailed analysis workflows. We develop this PWP prompt through iterative application of meta-prompting techniques and meta-reasoning aimed at systematically codifying expert review workflows, including tacit knowledge. Submitted once at the start of a session, this PWP prompt equips the LLM with persistent workflows triggered by subsequent queries, guiding modern reasoning LLMs through systematic, multimodal evaluations. Demonstrations show the PWP-guided LLM identifying major methodological flaws in a test case while mitigating LLM input bias and performing complex tasks, including distinguishing claims from evidence, integrating text/photo/figure analysis to infer parameters, executing quantitative feasibility checks, comparing estimates against claims, and assessing a priori plausibility. To ensure transparency and facilitate replication, we provide full prompts, detailed demonstration analyses, and logs of interactive chats as supplementary resources. Beyond the specific application, this work offers insights into the meta-development process itself, highlighting the potential of PWP, informed by detailed workflow formalization, to enable sophisticated analysis using readily available LLMs for complex scientific tasks.
Conceptrol: Concept Control of Zero-shot Personalized Image Generation
Personalized image generation with text-to-image diffusion models generates unseen images based on reference image content. Zero-shot adapter methods such as IP-Adapter and OminiControl are especially interesting because they do not require test-time fine-tuning. However, they struggle to balance preserving personalized content and adherence to the text prompt. We identify a critical design flaw resulting in this performance gap: current adapters inadequately integrate personalization images with the textual descriptions. The generated images, therefore, replicate the personalized content rather than adhere to the text prompt instructions. Yet the base text-to-image has strong conceptual understanding capabilities that can be leveraged. We propose Conceptrol, a simple yet effective framework that enhances zero-shot adapters without adding computational overhead. Conceptrol constrains the attention of visual specification with a textual concept mask that improves subject-driven generation capabilities. It achieves as much as 89% improvement on personalization benchmarks over the vanilla IP-Adapter and can even outperform fine-tuning approaches such as Dreambooth LoRA. The source code is available at https://github.com/QY-H00/Conceptrol.
MIRFLEX: Music Information Retrieval Feature Library for Extraction
This paper introduces an extendable modular system that compiles a range of music feature extraction models to aid music information retrieval research. The features include musical elements like key, downbeats, and genre, as well as audio characteristics like instrument recognition, vocals/instrumental classification, and vocals gender detection. The integrated models are state-of-the-art or latest open-source. The features can be extracted as latent or post-processed labels, enabling integration into music applications such as generative music, recommendation, and playlist generation. The modular design allows easy integration of newly developed systems, making it a good benchmarking and comparison tool. This versatile toolkit supports the research community in developing innovative solutions by providing concrete musical features.
MoGraphGPT: Creating Interactive Scenes Using Modular LLM and Graphical Control
Creating interactive scenes often involves complex programming tasks. Although large language models (LLMs) like ChatGPT can generate code from natural language, their output is often error-prone, particularly when scripting interactions among multiple elements. The linear conversational structure limits the editing of individual elements, and lacking graphical and precise control complicates visual integration. To address these issues, we integrate an element-level modularization technique that processes textual descriptions for individual elements through separate LLM modules, with a central module managing interactions among elements. This modular approach allows for refining each element independently. We design a graphical user interface, MoGraphGPT , which combines modular LLMs with enhanced graphical control to generate codes for 2D interactive scenes. It enables direct integration of graphical information and offers quick, precise control through automatically generated sliders. Our comparative evaluation against an AI coding tool, Cursor Composer, as the baseline system and a usability study show MoGraphGPT significantly improves easiness, controllability, and refinement in creating complex 2D interactive scenes with multiple visual elements in a coding-free manner.
SWE-Fixer: Training Open-Source LLMs for Effective and Efficient GitHub Issue Resolution
Large Language Models (LLMs) have demonstrated remarkable proficiency across a variety of complex tasks. One significant application of LLMs is in tackling software engineering challenges, particularly in resolving real-world tasks on GitHub by fixing code based on the issues reported by the users. However, many current approaches rely on proprietary LLMs, which limits reproducibility, accessibility, and transparency. The critical components of LLMs for addressing software engineering issues and how their capabilities can be effectively enhanced remain unclear. To address these challenges, we introduce SWE-Fixer, a novel open-source LLM designed to effectively and efficiently resolve GitHub issues. SWE-Fixer comprises two essential modules: a code file retrieval module and a code editing module. The retrieval module employs BM25 along with a lightweight LLM model to achieve coarse-to-fine file retrieval. Subsequently, the code editing module utilizes the other LLM model to generate patches for the identified files. Then, to mitigate the lack of publicly available datasets, we compile an extensive dataset that includes 110K GitHub issues along with their corresponding patches, and train the two modules of SWE-Fixer separately. We assess our approach on the SWE-Bench Lite and Verified benchmarks, achieving state-of-the-art performance among open-source models with scores of 23.3% and 30.2%, respectively. These outcomes highlight the efficacy of our approach. We will make our model, dataset, and code publicly available at https://github.com/InternLM/SWE-Fixer.
MMFactory: A Universal Solution Search Engine for Vision-Language Tasks
With advances in foundational and vision-language models, and effective fine-tuning techniques, a large number of both general and special-purpose models have been developed for a variety of visual tasks. Despite the flexibility and accessibility of these models, no single model is able to handle all tasks and/or applications that may be envisioned by potential users. Recent approaches, such as visual programming and multimodal LLMs with integrated tools aim to tackle complex visual tasks, by way of program synthesis. However, such approaches overlook user constraints (e.g., performance / computational needs), produce test-time sample-specific solutions that are difficult to deploy, and, sometimes, require low-level instructions that maybe beyond the abilities of a naive user. To address these limitations, we introduce MMFactory, a universal framework that includes model and metrics routing components, acting like a solution search engine across various available models. Based on a task description and few sample input-output pairs and (optionally) resource and/or performance constraints, MMFactory can suggest a diverse pool of programmatic solutions by instantiating and combining visio-lingual tools from its model repository. In addition to synthesizing these solutions, MMFactory also proposes metrics and benchmarks performance / resource characteristics, allowing users to pick a solution that meets their unique design constraints. From the technical perspective, we also introduced a committee-based solution proposer that leverages multi-agent LLM conversation to generate executable, diverse, universal, and robust solutions for the user. Experimental results show that MMFactory outperforms existing methods by delivering state-of-the-art solutions tailored to user problem specifications. Project page is available at https://davidhalladay.github.io/mmfactory_demo.
Chain of Ideas: Revolutionizing Research in Novel Idea Development with LLM Agents
Effective research ideation is a critical step for scientific research. However, the exponential increase in scientific literature makes it challenging for researchers to stay current with recent advances and identify meaningful research directions. Recent developments in large language models~(LLMs) suggest a promising avenue for automating the generation of novel research ideas. However, existing methods for idea generation either trivially prompt LLMs or directly expose LLMs to extensive literature without indicating useful information. Inspired by the research process of human researchers, we propose a Chain-of-Ideas~(CoI) agent, an LLM-based agent that organizes relevant literature in a chain structure to effectively mirror the progressive development in a research domain. This organization facilitates LLMs to capture the current advancements in research, thereby enhancing their ideation capabilities. Furthermore, we propose Idea Arena, an evaluation protocol that can comprehensively evaluate idea generation methods from different perspectives, aligning closely with the preferences of human researchers. Experimental results indicate that the CoI agent consistently outperforms other methods and shows comparable quality as humans in research idea generation. Moreover, our CoI agent is budget-friendly, with a minimum cost of \$0.50 to generate a candidate idea and its corresponding experimental design.
Idea23D: Collaborative LMM Agents Enable 3D Model Generation from Interleaved Multimodal Inputs
With the success of 2D diffusion models, 2D AIGC content has already transformed our lives. Recently, this success has been extended to 3D AIGC, with state-of-the-art methods generating textured 3D models from single images or text. However, we argue that current 3D AIGC methods still do not fully unleash human creativity. We often imagine 3D content made from multimodal inputs, such as what it would look like if my pet bunny were eating a doughnut on the table. In this paper, we explore a novel 3D AIGC approach: generating 3D content from IDEAs. An IDEA is a multimodal input composed of text, image, and 3D models. To our knowledge, this challenging and exciting 3D AIGC setting has not been studied before. We propose the new framework Idea23D, which combines three agents based on large multimodal models (LMMs) and existing algorithmic tools. These three LMM-based agents are tasked with prompt generation, model selection, and feedback reflection. They collaborate and critique each other in a fully automated loop, without human intervention. The framework then generates a text prompt to create 3D models that align closely with the input IDEAs. We demonstrate impressive 3D AIGC results that surpass previous methods. To comprehensively assess the 3D AIGC capabilities of Idea23D, we introduce the Eval3DAIGC-198 dataset, containing 198 multimodal inputs for 3D generation tasks. This dataset evaluates the alignment between generated 3D content and input IDEAs. Our user study and quantitative results show that Idea23D significantly improves the success rate and accuracy of 3D generation, with excellent compatibility across various LMM, Text-to-Image, and Image-to-3D models. Code and dataset are available at https://idea23d.github.io/.
MutaGReP: Execution-Free Repository-Grounded Plan Search for Code-Use
When a human requests an LLM to complete a coding task using functionality from a large code repository, how do we provide context from the repo to the LLM? One approach is to add the entire repo to the LLM's context window. However, most tasks involve only fraction of symbols from a repo, longer contexts are detrimental to the LLM's reasoning abilities, and context windows are not unlimited. Alternatively, we could emulate the human ability to navigate a large repo, pick out the right functionality, and form a plan to solve the task. We propose MutaGReP (Mutation-guided Grounded Repository Plan Search), an approach to search for plans that decompose a user request into natural language steps grounded in the codebase. MutaGReP performs neural tree search in plan space, exploring by mutating plans and using a symbol retriever for grounding. On the challenging LongCodeArena benchmark, our plans use less than 5% of the 128K context window for GPT-4o but rival the coding performance of GPT-4o with a context window filled with the repo. Plans produced by MutaGReP allow Qwen 2.5 Coder 32B and 72B to match the performance of GPT-4o with full repo context and enable progress on the hardest LongCodeArena tasks. Project page: zaidkhan.me/MutaGReP