new

Get trending papers in your email inbox!

Subscribe

byAK and the research community

Mar 14

Single-Cell Omics Arena: A Benchmark Study for Large Language Models on Cell Type Annotation Using Single-Cell Data

Over the past decade, the revolution in single-cell sequencing has enabled the simultaneous molecular profiling of various modalities across thousands of individual cells, allowing scientists to investigate the diverse functions of complex tissues and uncover underlying disease mechanisms. Among all the analytical steps, assigning individual cells to specific types is fundamental for understanding cellular heterogeneity. However, this process is usually labor-intensive and requires extensive expert knowledge. Recent advances in large language models (LLMs) have demonstrated their ability to efficiently process and synthesize vast corpora of text to automatically extract essential biological knowledge, such as marker genes, potentially promoting more efficient and automated cell type annotations. To thoroughly evaluate the capability of modern instruction-tuned LLMs in automating the cell type identification process, we introduce SOAR, a comprehensive benchmarking study of LLMs for cell type annotation tasks in single-cell genomics. Specifically, we assess the performance of 8 instruction-tuned LLMs across 11 datasets, spanning multiple cell types and species. Our study explores the potential of LLMs to accurately classify and annotate cell types in single-cell RNA sequencing (scRNA-seq) data, while extending their application to multiomics data through cross-modality translation. Additionally, we evaluate the effectiveness of chain-of-thought (CoT) prompting techniques in generating detailed biological insights during the annotation process. The results demonstrate that LLMs can provide robust interpretations of single-cell data without requiring additional fine-tuning, advancing the automation of cell type annotation in genomics research.

GPT Self-Supervision for a Better Data Annotator

The task of annotating data into concise summaries poses a significant challenge across various domains, frequently requiring the allocation of significant time and specialized knowledge by human experts. Despite existing efforts to use large language models for annotation tasks, significant problems such as limited applicability to unlabeled data, the absence of self-supervised methods, and the lack of focus on complex structured data still persist. In this work, we propose a GPT self-supervision annotation method, which embodies a generating-recovering paradigm that leverages the one-shot learning capabilities of the Generative Pretrained Transformer (GPT). The proposed approach comprises a one-shot tuning phase followed by a generation phase. In the one-shot tuning phase, we sample a data from the support set as part of the prompt for GPT to generate a textual summary, which is then used to recover the original data. The alignment score between the recovered and original data serves as a self-supervision navigator to refine the process. In the generation stage, the optimally selected one-shot sample serves as a template in the prompt and is applied to generating summaries from challenging datasets. The annotation performance is evaluated by tuning several human feedback reward networks and by calculating alignment scores between original and recovered data at both sentence and structure levels. Our self-supervised annotation method consistently achieves competitive scores, convincingly demonstrating its robust strength in various data-to-summary annotation tasks.

SegAgent: Exploring Pixel Understanding Capabilities in MLLMs by Imitating Human Annotator Trajectories

While MLLMs have demonstrated adequate image understanding capabilities, they still struggle with pixel-level comprehension, limiting their practical applications. Current evaluation tasks like VQA and visual grounding remain too coarse to assess fine-grained pixel comprehension accurately. Though segmentation is foundational for pixel-level understanding, existing methods often require MLLMs to generate implicit tokens, decoded through external pixel decoders. This approach disrupts the MLLM's text output space, potentially compromising language capabilities and reducing flexibility and extensibility, while failing to reflect the model's intrinsic pixel-level understanding. Thus, we introduce the Human-Like Mask Annotation Task (HLMAT), a new paradigm where MLLMs mimic human annotators using interactive segmentation tools. Modeling segmentation as a multi-step Markov Decision Process, HLMAT enables MLLMs to iteratively generate text-based click points, achieving high-quality masks without architectural changes or implicit tokens. Through this setup, we develop SegAgent, a model fine-tuned on human-like annotation trajectories, which achieves performance comparable to state-of-the-art (SOTA) methods and supports additional tasks like mask refinement and annotation filtering. HLMAT provides a protocol for assessing fine-grained pixel understanding in MLLMs and introduces a vision-centric, multi-step decision-making task that facilitates exploration of MLLMs' visual reasoning abilities. Our adaptations of policy improvement method StaR and PRM-guided tree search further enhance model robustness in complex segmentation tasks, laying a foundation for future advancements in fine-grained visual perception and multi-step decision-making for MLLMs.

ConvNets for Counting: Object Detection of Transient Phenomena in Steelpan Drums

We train an object detector built from convolutional neural networks to count interference fringes in elliptical antinode regions in frames of high-speed video recordings of transient oscillations in Caribbean steelpan drums illuminated by electronic speckle pattern interferometry (ESPI). The annotations provided by our model aim to contribute to the understanding of time-dependent behavior in such drums by tracking the development of sympathetic vibration modes. The system is trained on a dataset of crowdsourced human-annotated images obtained from the Zooniverse Steelpan Vibrations Project. Due to the small number of human-annotated images and the ambiguity of the annotation task, we also evaluate the model on a large corpus of synthetic images whose properties have been matched to the real images by style transfer using a Generative Adversarial Network. Applying the model to thousands of unlabeled video frames, we measure oscillations consistent with audio recordings of these drum strikes. One unanticipated result is that sympathetic oscillations of higher-octave notes significantly precede the rise in sound intensity of the corresponding second harmonic tones; the mechanism responsible for this remains unidentified. This paper primarily concerns the development of the predictive model; further exploration of the steelpan images and deeper physical insights await its further application.

Efficient and Scalable Fine-Tune of Language Models for Genome Understanding

Although DNA foundation models have advanced the understanding of genomes, they still face significant challenges in the limited scale and diversity of genomic data. This limitation starkly contrasts with the success of natural language foundation models, which thrive on substantially larger scales. Furthermore, genome understanding involves numerous downstream genome annotation tasks with inherent data heterogeneity, thereby necessitating more efficient and robust fine-tuning methods tailored for genomics. Here, we present Lingo: Language prefix fIne-tuning for GenOmes. Unlike DNA foundation models, Lingo strategically leverages natural language foundation models' contextual cues, recalibrating their linguistic knowledge to genomic sequences. Lingo further accommodates numerous, heterogeneous downstream fine-tune tasks by an adaptive rank sampling method that prunes and stochastically reintroduces pruned singular vectors within small computational budgets. Adaptive rank sampling outperformed existing fine-tuning methods on all benchmarked 14 genome understanding tasks, while requiring fewer than 2\% of trainable parameters as genomic-specific adapters. Impressively, applying these adapters on natural language foundation models matched or even exceeded the performance of DNA foundation models. Lingo presents a new paradigm of efficient and scalable genome understanding via genomic-specific adapters on language models.

MassSpecGym: A benchmark for the discovery and identification of molecules

The discovery and identification of molecules in biological and environmental samples is crucial for advancing biomedical and chemical sciences. Tandem mass spectrometry (MS/MS) is the leading technique for high-throughput elucidation of molecular structures. However, decoding a molecular structure from its mass spectrum is exceptionally challenging, even when performed by human experts. As a result, the vast majority of acquired MS/MS spectra remain uninterpreted, thereby limiting our understanding of the underlying (bio)chemical processes. Despite decades of progress in machine learning applications for predicting molecular structures from MS/MS spectra, the development of new methods is severely hindered by the lack of standard datasets and evaluation protocols. To address this problem, we propose MassSpecGym -- the first comprehensive benchmark for the discovery and identification of molecules from MS/MS data. Our benchmark comprises the largest publicly available collection of high-quality labeled MS/MS spectra and defines three MS/MS annotation challenges: de novo molecular structure generation, molecule retrieval, and spectrum simulation. It includes new evaluation metrics and a generalization-demanding data split, therefore standardizing the MS/MS annotation tasks and rendering the problem accessible to the broad machine learning community. MassSpecGym is publicly available at https://github.com/pluskal-lab/MassSpecGym.

FABLES: Evaluating faithfulness and content selection in book-length summarization

While long-context large language models (LLMs) can technically summarize book-length documents (>100K tokens), the length and complexity of the documents have so far prohibited evaluations of input-dependent aspects like faithfulness. In this paper, we conduct the first large-scale human evaluation of faithfulness and content selection on LLM-generated summaries of fictional books. Our study mitigates the issue of data contamination by focusing on summaries of books published in 2023 or 2024, and we hire annotators who have fully read each book prior to the annotation task to minimize cost and cognitive burden. We collect FABLES, a dataset of annotations on 3,158 claims made in LLM-generated summaries of 26 books, at a cost of $5.2K USD, which allows us to rank LLM summarizers based on faithfulness: Claude-3-Opus significantly outperforms all closed-source LLMs, while the open-source Mixtral is on par with GPT-3.5-Turbo. An analysis of the annotations reveals that most unfaithful claims relate to events and character states, and they generally require indirect reasoning over the narrative to invalidate. While LLM-based auto-raters have proven reliable for factuality and coherence in other settings, we implement several LLM raters of faithfulness and find that none correlates strongly with human annotations, especially with regard to detecting unfaithful claims. Our experiments suggest that detecting unfaithful claims is an important future direction not only for summarization evaluation but also as a testbed for long-context understanding. Finally, we move beyond faithfulness by exploring content selection errors in book-length summarization: we develop a typology of omission errors related to crucial narrative elements and also identify a systematic over-emphasis on events occurring towards the end of the book.

Transductive Multi-view Zero-Shot Learning

Most existing zero-shot learning approaches exploit transfer learning via an intermediate-level semantic representation shared between an annotated auxiliary dataset and a target dataset with different classes and no annotation. A projection from a low-level feature space to the semantic representation space is learned from the auxiliary dataset and is applied without adaptation to the target dataset. In this paper we identify two inherent limitations with these approaches. First, due to having disjoint and potentially unrelated classes, the projection functions learned from the auxiliary dataset/domain are biased when applied directly to the target dataset/domain. We call this problem the projection domain shift problem and propose a novel framework, transductive multi-view embedding, to solve it. The second limitation is the prototype sparsity problem which refers to the fact that for each target class, only a single prototype is available for zero-shot learning given a semantic representation. To overcome this problem, a novel heterogeneous multi-view hypergraph label propagation method is formulated for zero-shot learning in the transductive embedding space. It effectively exploits the complementary information offered by different semantic representations and takes advantage of the manifold structures of multiple representation spaces in a coherent manner. We demonstrate through extensive experiments that the proposed approach (1) rectifies the projection shift between the auxiliary and target domains, (2) exploits the complementarity of multiple semantic representations, (3) significantly outperforms existing methods for both zero-shot and N-shot recognition on three image and video benchmark datasets, and (4) enables novel cross-view annotation tasks.

MAVEN-Arg: Completing the Puzzle of All-in-One Event Understanding Dataset with Event Argument Annotation

Understanding events in texts is a core objective of natural language understanding, which requires detecting event occurrences, extracting event arguments, and analyzing inter-event relationships. However, due to the annotation challenges brought by task complexity, a large-scale dataset covering the full process of event understanding has long been absent. In this paper, we introduce MAVEN-Arg, which augments MAVEN datasets with event argument annotations, making the first all-in-one dataset supporting event detection, event argument extraction (EAE), and event relation extraction. As an EAE benchmark, MAVEN-Arg offers three main advantages: (1) a comprehensive schema covering 162 event types and 612 argument roles, all with expert-written definitions and examples; (2) a large data scale, containing 98,591 events and 290,613 arguments obtained with laborious human annotation; (3) the exhaustive annotation supporting all task variants of EAE, which annotates both entity and non-entity event arguments in document level. Experiments indicate that MAVEN-Arg is quite challenging for both fine-tuned EAE models and proprietary large language models (LLMs). Furthermore, to demonstrate the benefits of an all-in-one dataset, we preliminarily explore a potential application, future event prediction, with LLMs. MAVEN-Arg and our code can be obtained from https://github.com/THU-KEG/MAVEN-Argument.

InterFormer: Real-time Interactive Image Segmentation

Interactive image segmentation enables annotators to efficiently perform pixel-level annotation for segmentation tasks. However, the existing interactive segmentation pipeline suffers from inefficient computations of interactive models because of the following two issues. First, annotators' later click is based on models' feedback of annotators' former click. This serial interaction is unable to utilize model's parallelism capabilities. Second, in each interaction step, the model handles the invariant image along with the sparse variable clicks, resulting in a process that's highly repetitive and redundant. For efficient computations, we propose a method named InterFormer that follows a new pipeline to address these issues. InterFormer extracts and preprocesses the computationally time-consuming part i.e. image processing from the existing process. Specifically, InterFormer employs a large vision transformer (ViT) on high-performance devices to preprocess images in parallel, and then uses a lightweight module called interactive multi-head self attention (I-MSA) for interactive segmentation. Furthermore, the I-MSA module's deployment on low-power devices extends the practical application of interactive segmentation. The I-MSA module utilizes the preprocessed features to efficiently response to the annotator inputs in real-time. The experiments on several datasets demonstrate the effectiveness of InterFormer, which outperforms previous interactive segmentation models in terms of computational efficiency and segmentation quality, achieve real-time high-quality interactive segmentation on CPU-only devices. The code is available at https://github.com/YouHuang67/InterFormer.

VideoAutoArena: An Automated Arena for Evaluating Large Multimodal Models in Video Analysis through User Simulation

Large multimodal models (LMMs) with advanced video analysis capabilities have recently garnered significant attention. However, most evaluations rely on traditional methods like multiple-choice questions in benchmarks such as VideoMME and LongVideoBench, which are prone to lack the depth needed to capture the complex demands of real-world users. To address this limitation-and due to the prohibitive cost and slow pace of human annotation for video tasks-we introduce VideoAutoArena, an arena-style benchmark inspired by LMSYS Chatbot Arena's framework, designed to automatically assess LMMs' video analysis abilities. VideoAutoArena utilizes user simulation to generate open-ended, adaptive questions that rigorously assess model performance in video understanding. The benchmark features an automated, scalable evaluation framework, incorporating a modified ELO Rating System for fair and continuous comparisons across multiple LMMs. To validate our automated judging system, we construct a 'gold standard' using a carefully curated subset of human annotations, demonstrating that our arena strongly aligns with human judgment while maintaining scalability. Additionally, we introduce a fault-driven evolution strategy, progressively increasing question complexity to push models toward handling more challenging video analysis scenarios. Experimental results demonstrate that VideoAutoArena effectively differentiates among state-of-the-art LMMs, providing insights into model strengths and areas for improvement. To further streamline our evaluation, we introduce VideoAutoBench as an auxiliary benchmark, where human annotators label winners in a subset of VideoAutoArena battles. We use GPT-4o as a judge to compare responses against these human-validated answers. Together, VideoAutoArena and VideoAutoBench offer a cost-effective, and scalable framework for evaluating LMMs in user-centric video analysis.

LLM Self-Correction with DeCRIM: Decompose, Critique, and Refine for Enhanced Following of Instructions with Multiple Constraints

Instruction following is a key capability for LLMs. However, recent studies have shown that LLMs often struggle with instructions containing multiple constraints (e.g. a request to create a social media post "in a funny tone" with "no hashtag"). Despite this, most evaluations focus solely on synthetic data. To address this, we introduce RealInstruct, the first benchmark designed to evaluate LLMs' ability to follow real-world multi-constrained instructions by leveraging queries real users asked AI assistants. We also investigate model-based evaluation as a cost-effective alternative to human annotation for this task. Our findings reveal that even the proprietary GPT-4 model fails to meet at least one constraint on over 21% of instructions, highlighting the limitations of state-of-the-art models. To address the performance gap between open-source and proprietary models, we propose the Decompose, Critique and Refine (DeCRIM) self-correction pipeline, which enhances LLMs' ability to follow constraints. DeCRIM works by decomposing the original instruction into a list of constraints and using a Critic model to decide when and where the LLM's response needs refinement. Our results show that DeCRIM improves Mistral's performance by 7.3% on RealInstruct and 8.0% on IFEval even with weak feedback. Moreover, we demonstrate that with strong feedback, open-source LLMs with DeCRIM can outperform GPT-4 on both benchmarks.

Comparing Rule-Based and Deep Learning Models for Patient Phenotyping

Objective: We investigate whether deep learning techniques for natural language processing (NLP) can be used efficiently for patient phenotyping. Patient phenotyping is a classification task for determining whether a patient has a medical condition, and is a crucial part of secondary analysis of healthcare data. We assess the performance of deep learning algorithms and compare them with classical NLP approaches. Materials and Methods: We compare convolutional neural networks (CNNs), n-gram models, and approaches based on cTAKES that extract pre-defined medical concepts from clinical notes and use them to predict patient phenotypes. The performance is tested on 10 different phenotyping tasks using 1,610 discharge summaries extracted from the MIMIC-III database. Results: CNNs outperform other phenotyping algorithms in all 10 tasks. The average F1-score of our model is 76 (PPV of 83, and sensitivity of 71) with our model having an F1-score up to 37 points higher than alternative approaches. We additionally assess the interpretability of our model by presenting a method that extracts the most salient phrases for a particular prediction. Conclusion: We show that NLP methods based on deep learning improve the performance of patient phenotyping. Our CNN-based algorithm automatically learns the phrases associated with each patient phenotype. As such, it reduces the annotation complexity for clinical domain experts, who are normally required to develop task-specific annotation rules and identify relevant phrases. Our method performs well in terms of both performance and interpretability, which indicates that deep learning is an effective approach to patient phenotyping based on clinicians' notes.

tasksource: Structured Dataset Preprocessing Annotations for Frictionless Extreme Multi-Task Learning and Evaluation

The HuggingFace Datasets Hub hosts thousands of datasets. This provides exciting opportunities for language model training and evaluation. However, the datasets for a given type of task are stored with different schemas, and harmonization is harder than it seems (https://xkcd.com/927/). Multi-task training or evaluation requires manual work to fit data into task templates. Various initiatives independently address this problem by releasing the harmonized datasets or harmonization codes to preprocess datasets to the same format. We identify patterns across previous preprocessings, e.g. mapping of column names, and extraction of a specific sub-field from structured data in a column, and propose a structured annotation framework that makes our annotations fully exposed and not buried in unstructured code. We release a dataset annotation framework and dataset annotations for more than 400 English tasks (https://github.com/sileod/tasksource). These annotations provide metadata, like the name of the columns that should be used as input or labels for all datasets, and can save time for future dataset preprocessings, even if they do not use our framework. We fine-tune a multi-task text encoder on all tasksource tasks, outperforming every publicly available text encoder of comparable size on an external evaluation https://hf.co/sileod/deberta-v3-base-tasksource-nli.

Reverse Region-to-Entity Annotation for Pixel-Level Visual Entity Linking

Visual Entity Linking (VEL) is a crucial task for achieving fine-grained visual understanding, matching objects within images (visual mentions) to entities in a knowledge base. Previous VEL tasks rely on textual inputs, but writing queries for complex scenes can be challenging. Visual inputs like clicks or bounding boxes offer a more convenient alternative. Therefore, we propose a new task, Pixel-Level Visual Entity Linking (PL-VEL), which uses pixel masks from visual inputs to refer to objects, supplementing reference methods for VEL. To facilitate research on this task, we have constructed the MaskOVEN-Wiki dataset through an entirely automatic reverse region-entity annotation framework. This dataset contains over 5 million annotations aligning pixel-level regions with entity-level labels, which will advance visual understanding towards fine-grained. Moreover, as pixel masks correspond to semantic regions in an image, we enhance previous patch-interacted attention with region-interacted attention by a visual semantic tokenization approach. Manual evaluation results indicate that the reverse annotation framework achieved a 94.8% annotation success rate. Experimental results show that models trained on this dataset improved accuracy by 18 points compared to zero-shot models. Additionally, the semantic tokenization method achieved a 5-point accuracy improvement over the trained baseline.

Lawma: The Power of Specialization for Legal Tasks

Annotation and classification of legal text are central components of empirical legal research. Traditionally, these tasks are often delegated to trained research assistants. Motivated by the advances in language modeling, empirical legal scholars are increasingly turning to prompting commercial models, hoping that it will alleviate the significant cost of human annotation. Despite growing use, our understanding of how to best utilize large language models for legal tasks remains limited. We conduct a comprehensive study of 260 legal text classification tasks, nearly all new to the machine learning community. Starting from GPT-4 as a baseline, we show that it has non-trivial but highly varied zero-shot accuracy, often exhibiting performance that may be insufficient for legal work. We then demonstrate that a lightly fine-tuned Llama 3 model vastly outperforms GPT-4 on almost all tasks, typically by double-digit percentage points. We find that larger models respond better to fine-tuning than smaller models. A few tens to hundreds of examples suffice to achieve high classification accuracy. Notably, we can fine-tune a single model on all 260 tasks simultaneously at a small loss in accuracy relative to having a separate model for each task. Our work points to a viable alternative to the predominant practice of prompting commercial models. For concrete legal tasks with some available labeled data, researchers are better off using a fine-tuned open-source model.

Name Your Colour For the Task: Artificially Discover Colour Naming via Colour Quantisation Transformer

The long-standing theory that a colour-naming system evolves under dual pressure of efficient communication and perceptual mechanism is supported by more and more linguistic studies, including analysing four decades of diachronic data from the Nafaanra language. This inspires us to explore whether machine learning could evolve and discover a similar colour-naming system via optimising the communication efficiency represented by high-level recognition performance. Here, we propose a novel colour quantisation transformer, CQFormer, that quantises colour space while maintaining the accuracy of machine recognition on the quantised images. Given an RGB image, Annotation Branch maps it into an index map before generating the quantised image with a colour palette; meanwhile the Palette Branch utilises a key-point detection way to find proper colours in the palette among the whole colour space. By interacting with colour annotation, CQFormer is able to balance both the machine vision accuracy and colour perceptual structure such as distinct and stable colour distribution for discovered colour system. Very interestingly, we even observe the consistent evolution pattern between our artificial colour system and basic colour terms across human languages. Besides, our colour quantisation method also offers an efficient quantisation method that effectively compresses the image storage while maintaining high performance in high-level recognition tasks such as classification and detection. Extensive experiments demonstrate the superior performance of our method with extremely low bit-rate colours, showing potential to integrate into quantisation network to quantities from image to network activation. The source code is available at https://github.com/ryeocthiv/CQFormer

Selective Annotation Makes Language Models Better Few-Shot Learners

Many recent approaches to natural language tasks are built on the remarkable abilities of large language models. Large language models can perform in-context learning, where they learn a new task from a few task demonstrations, without any parameter updates. This work examines the implications of in-context learning for the creation of datasets for new natural language tasks. Departing from recent in-context learning methods, we formulate an annotation-efficient, two-step framework: selective annotation that chooses a pool of examples to annotate from unlabeled data in advance, followed by prompt retrieval that retrieves task examples from the annotated pool at test time. Based on this framework, we propose an unsupervised, graph-based selective annotation method, voke-k, to select diverse, representative examples to annotate. Extensive experiments on 10 datasets (covering classification, commonsense reasoning, dialogue, and text/code generation) demonstrate that our selective annotation method improves the task performance by a large margin. On average, vote-k achieves a 12.9%/11.4% relative gain under an annotation budget of 18/100, as compared to randomly selecting examples to annotate. Compared to state-of-the-art supervised finetuning approaches, it yields similar performance with 10-100x less annotation cost across 10 tasks. We further analyze the effectiveness of our framework in various scenarios: language models with varying sizes, alternative selective annotation methods, and cases where there is a test data domain shift. We hope that our studies will serve as a basis for data annotations as large language models are increasingly applied to new tasks. Our code is available at https://github.com/HKUNLP/icl-selective-annotation.

FETA: Towards Specializing Foundation Models for Expert Task Applications

Foundation Models (FMs) have demonstrated unprecedented capabilities including zero-shot learning, high fidelity data synthesis, and out of domain generalization. However, as we show in this paper, FMs still have poor out-of-the-box performance on expert tasks (e.g. retrieval of car manuals technical illustrations from language queries), data for which is either unseen or belonging to a long-tail part of the data distribution of the huge datasets used for FM pre-training. This underlines the necessity to explicitly evaluate and finetune FMs on such expert tasks, arguably ones that appear the most in practical real-world applications. In this paper, we propose a first of its kind FETA benchmark built around the task of teaching FMs to understand technical documentation, via learning to match their graphical illustrations to corresponding language descriptions. Our FETA benchmark focuses on text-to-image and image-to-text retrieval in public car manuals and sales catalogue brochures. FETA is equipped with a procedure for completely automatic annotation extraction (code would be released upon acceptance), allowing easy extension of FETA to more documentation types and application domains in the future. Our automatic annotation leads to an automated performance metric shown to be consistent with metrics computed on human-curated annotations (also released). We provide multiple baselines and analysis of popular FMs on FETA leading to several interesting findings that we believe would be very valuable to the FM community, paving the way towards real-world application of FMs for practical expert tasks currently 'overlooked' by standard benchmarks focusing on common objects.

Annotation-Efficient Learning for Medical Image Segmentation based on Noisy Pseudo Labels and Adversarial Learning

Despite that deep learning has achieved state-of-the-art performance for medical image segmentation, its success relies on a large set of manually annotated images for training that are expensive to acquire. In this paper, we propose an annotation-efficient learning framework for segmentation tasks that avoids annotations of training images, where we use an improved Cycle-Consistent Generative Adversarial Network (GAN) to learn from a set of unpaired medical images and auxiliary masks obtained either from a shape model or public datasets. We first use the GAN to generate pseudo labels for our training images under the implicit high-level shape constraint represented by a Variational Auto-encoder (VAE)-based discriminator with the help of the auxiliary masks, and build a Discriminator-guided Generator Channel Calibration (DGCC) module which employs our discriminator's feedback to calibrate the generator for better pseudo labels. To learn from the pseudo labels that are noisy, we further introduce a noise-robust iterative learning method using noise-weighted Dice loss. We validated our framework with two situations: objects with a simple shape model like optic disc in fundus images and fetal head in ultrasound images, and complex structures like lung in X-Ray images and liver in CT images. Experimental results demonstrated that 1) Our VAE-based discriminator and DGCC module help to obtain high-quality pseudo labels. 2) Our proposed noise-robust learning method can effectively overcome the effect of noisy pseudo labels. 3) The segmentation performance of our method without using annotations of training images is close or even comparable to that of learning from human annotations.

ANAH-v2: Scaling Analytical Hallucination Annotation of Large Language Models

Large language models (LLMs) exhibit hallucinations in long-form question-answering tasks across various domains and wide applications. Current hallucination detection and mitigation datasets are limited in domains and sizes, which struggle to scale due to prohibitive labor costs and insufficient reliability of existing hallucination annotators. To facilitate the scalable oversight of LLM hallucinations, this paper introduces an iterative self-training framework that simultaneously and progressively scales up the hallucination annotation dataset and improves the accuracy of the hallucination annotator. Based on the Expectation Maximization (EM) algorithm, in each iteration, the framework first applies a hallucination annotation pipeline to annotate a scaled dataset and then trains a more accurate hallucination annotator on the dataset. This new hallucination annotator is adopted in the hallucination annotation pipeline used for the next iteration. Extensive experimental results demonstrate that the finally obtained hallucination annotator with only 7B parameters surpasses the performance of GPT-4 and obtains new state-of-the-art hallucination detection results on HaluEval and HalluQA by zero-shot inference. Such an annotator can not only evaluate the hallucination levels of various LLMs on the large-scale dataset but also help to mitigate the hallucination of LLMs generations, with the Natural Language Inference (NLI) metric increasing from 25% to 37% on HaluEval.

Less is More: Reducing Task and Model Complexity for 3D Point Cloud Semantic Segmentation

Whilst the availability of 3D LiDAR point cloud data has significantly grown in recent years, annotation remains expensive and time-consuming, leading to a demand for semi-supervised semantic segmentation methods with application domains such as autonomous driving. Existing work very often employs relatively large segmentation backbone networks to improve segmentation accuracy, at the expense of computational costs. In addition, many use uniform sampling to reduce ground truth data requirements for learning needed, often resulting in sub-optimal performance. To address these issues, we propose a new pipeline that employs a smaller architecture, requiring fewer ground-truth annotations to achieve superior segmentation accuracy compared to contemporary approaches. This is facilitated via a novel Sparse Depthwise Separable Convolution module that significantly reduces the network parameter count while retaining overall task performance. To effectively sub-sample our training data, we propose a new Spatio-Temporal Redundant Frame Downsampling (ST-RFD) method that leverages knowledge of sensor motion within the environment to extract a more diverse subset of training data frame samples. To leverage the use of limited annotated data samples, we further propose a soft pseudo-label method informed by LiDAR reflectivity. Our method outperforms contemporary semi-supervised work in terms of mIoU, using less labeled data, on the SemanticKITTI (59.5@5%) and ScribbleKITTI (58.1@5%) benchmark datasets, based on a 2.3x reduction in model parameters and 641x fewer multiply-add operations whilst also demonstrating significant performance improvement on limited training data (i.e., Less is More).

TexPrax: A Messaging Application for Ethical, Real-time Data Collection and Annotation

Collecting and annotating task-oriented dialog data is difficult, especially for highly specific domains that require expert knowledge. At the same time, informal communication channels such as instant messengers are increasingly being used at work. This has led to a lot of work-relevant information that is disseminated through those channels and needs to be post-processed manually by the employees. To alleviate this problem, we present TexPrax, a messaging system to collect and annotate problems, causes, and solutions that occur in work-related chats. TexPrax uses a chatbot to directly engage the employees to provide lightweight annotations on their conversation and ease their documentation work. To comply with data privacy and security regulations, we use an end-to-end message encryption and give our users full control over their data which has various advantages over conventional annotation tools. We evaluate TexPrax in a user-study with German factory employees who ask their colleagues for solutions on problems that arise during their daily work. Overall, we collect 202 task-oriented German dialogues containing 1,027 sentences with sentence-level expert annotations. Our data analysis also reveals that real-world conversations frequently contain instances with code-switching, varying abbreviations for the same entity, and dialects which NLP systems should be able to handle.

SciGLM: Training Scientific Language Models with Self-Reflective Instruction Annotation and Tuning

sec:abstract Large Language Models (LLMs) have shown promise in assisting scientific discovery. However, such applications are currently limited by LLMs' deficiencies in understanding intricate scientific concepts, deriving symbolic equations, and solving advanced numerical calculations. To bridge these gaps, we introduce SciGLM, a suite of scientific language models able to conduct college-level scientific reasoning. Central to our approach is a novel self-reflective instruction annotation framework to address the data scarcity challenge in the science domain. This framework leverages existing LLMs to generate step-by-step reasoning for unlabelled scientific questions, followed by a process of self-reflective critic-and-revise. Applying this framework, we curated SciInstruct, a diverse and high-quality dataset encompassing mathematics, physics, chemistry, and formal proofs. We fine-tuned the ChatGLM family of language models with SciInstruct, enhancing their capabilities in scientific and mathematical reasoning. Remarkably, SciGLM consistently improves both the base model (ChatGLM3-6B-Base) and larger-scale models (12B and 32B), without sacrificing the language understanding capabilities of the base model. This makes SciGLM a suitable foundational model to facilitate diverse scientific discovery tasks. For the benefit of the wider research community, we release SciInstruct, SciGLM, alongside a self-reflective framework and fine-tuning code at https://github.com/THUDM/SciGLM.

EmoLLMs: A Series of Emotional Large Language Models and Annotation Tools for Comprehensive Affective Analysis

Sentiment analysis and emotion detection are important research topics in natural language processing (NLP) and benefit many downstream tasks. With the widespread application of LLMs, researchers have started exploring the application of LLMs based on instruction-tuning in the field of sentiment analysis. However, these models only focus on single aspects of affective classification tasks (e.g. sentimental polarity or categorical emotions), and overlook the regression tasks (e.g. sentiment strength or emotion intensity), which leads to poor performance in downstream tasks. The main reason is the lack of comprehensive affective instruction tuning datasets and evaluation benchmarks, which cover various affective classification and regression tasks. Moreover, although emotional information is useful for downstream tasks, existing downstream datasets lack high-quality and comprehensive affective annotations. In this paper, we propose EmoLLMs, the first series of open-sourced instruction-following LLMs for comprehensive affective analysis based on fine-tuning various LLMs with instruction data, the first multi-task affective analysis instruction dataset (AAID) with 234K data samples based on various classification and regression tasks to support LLM instruction tuning, and a comprehensive affective evaluation benchmark (AEB) with 14 tasks from various sources and domains to test the generalization ability of LLMs. We propose a series of EmoLLMs by fine-tuning LLMs with AAID to solve various affective instruction tasks. We compare our model with a variety of LLMs on AEB, where our models outperform all other open-sourced LLMs, and surpass ChatGPT and GPT-4 in most tasks, which shows that the series of EmoLLMs achieve the ChatGPT-level and GPT-4-level generalization capabilities on affective analysis tasks, and demonstrates our models can be used as affective annotation tools.

SLUE Phase-2: A Benchmark Suite of Diverse Spoken Language Understanding Tasks

Spoken language understanding (SLU) tasks have been studied for many decades in the speech research community, but have not received as much attention as lower-level tasks like speech and speaker recognition. In particular, there are not nearly as many SLU task benchmarks, and many of the existing ones use data that is not freely available to all researchers. Recent work has begun to introduce such benchmark datasets for several tasks. In this work, we introduce several new annotated SLU benchmark tasks based on freely available speech data, which complement existing benchmarks and address gaps in the SLU evaluation landscape. We contribute four tasks: question answering and summarization involve inference over longer speech sequences; named entity localization addresses the speech-specific task of locating the targeted content in the signal; dialog act classification identifies the function of a given speech utterance. We follow the blueprint of the Spoken Language Understanding Evaluation (SLUE) benchmark suite. In order to facilitate the development of SLU models that leverage the success of pre-trained speech representations, we will be publishing for each task (i) annotations for a relatively small fine-tuning set, (ii) annotated development and test sets, and (iii) baseline models for easy reproducibility and comparisons. In this work, we present the details of data collection and annotation and the performance of the baseline models. We also perform sensitivity analysis of pipeline models' performance (speech recognizer + text model) to the speech recognition accuracy, using more than 20 state-of-the-art speech recognition models.

Taskmaster-1: Toward a Realistic and Diverse Dialog Dataset

A significant barrier to progress in data-driven approaches to building dialog systems is the lack of high quality, goal-oriented conversational data. To help satisfy this elementary requirement, we introduce the initial release of the Taskmaster-1 dataset which includes 13,215 task-based dialogs comprising six domains. Two procedures were used to create this collection, each with unique advantages. The first involves a two-person, spoken "Wizard of Oz" (WOz) approach in which trained agents and crowdsourced workers interact to complete the task while the second is "self-dialog" in which crowdsourced workers write the entire dialog themselves. We do not restrict the workers to detailed scripts or to a small knowledge base and hence we observe that our dataset contains more realistic and diverse conversations in comparison to existing datasets. We offer several baseline models including state of the art neural seq2seq architectures with benchmark performance as well as qualitative human evaluations. Dialogs are labeled with API calls and arguments, a simple and cost effective approach which avoids the requirement of complex annotation schema. The layer of abstraction between the dialog model and the service provider API allows for a given model to interact with multiple services that provide similar functionally. Finally, the dataset will evoke interest in written vs. spoken language, discourse patterns, error handling and other linguistic phenomena related to dialog system research, development and design.

Vision-Flan: Scaling Human-Labeled Tasks in Visual Instruction Tuning

Despite vision-language models' (VLMs) remarkable capabilities as versatile visual assistants, two substantial challenges persist within the existing VLM frameworks: (1) lacking task diversity in pretraining and visual instruction tuning, and (2) annotation error and bias in GPT-4 synthesized instruction tuning data. Both challenges lead to issues such as poor generalizability, hallucination, and catastrophic forgetting. To address these challenges, we construct Vision-Flan, the most diverse publicly available visual instruction tuning dataset to date, comprising 187 diverse tasks and 1,664,261 instances sourced from academic datasets, and each task is accompanied by an expert-written instruction. In addition, we propose a two-stage instruction tuning framework, in which VLMs are firstly finetuned on Vision-Flan and further tuned on GPT-4 synthesized data. We find this two-stage tuning framework significantly outperforms the traditional single-stage visual instruction tuning framework and achieves the state-of-the-art performance across a wide range of multi-modal evaluation benchmarks. Finally, we conduct in-depth analyses to understand visual instruction tuning and our findings reveal that: (1) GPT-4 synthesized data does not substantially enhance VLMs' capabilities but rather modulates the model's responses to human-preferred formats; (2) A minimal quantity (e.g., 1,000) of GPT-4 synthesized data can effectively align VLM responses with human-preference; (3) Visual instruction tuning mainly helps large-language models (LLMs) to understand visual features.

Simulating User Satisfaction for the Evaluation of Task-oriented Dialogue Systems

Evaluation is crucial in the development process of task-oriented dialogue systems. As an evaluation method, user simulation allows us to tackle issues such as scalability and cost-efficiency, making it a viable choice for large-scale automatic evaluation. To help build a human-like user simulator that can measure the quality of a dialogue, we propose the following task: simulating user satisfaction for the evaluation of task-oriented dialogue systems. The purpose of the task is to increase the evaluation power of user simulations and to make the simulation more human-like. To overcome a lack of annotated data, we propose a user satisfaction annotation dataset, USS, that includes 6,800 dialogues sampled from multiple domains, spanning real-world e-commerce dialogues, task-oriented dialogues constructed through Wizard-of-Oz experiments, and movie recommendation dialogues. All user utterances in those dialogues, as well as the dialogues themselves, have been labeled based on a 5-level satisfaction scale. We also share three baseline methods for user satisfaction prediction and action prediction tasks. Experiments conducted on the USS dataset suggest that distributed representations outperform feature-based methods. A model based on hierarchical GRUs achieves the best performance in in-domain user satisfaction prediction, while a BERT-based model has better cross-domain generalization ability.

EndoNet: A Deep Architecture for Recognition Tasks on Laparoscopic Videos

Surgical workflow recognition has numerous potential medical applications, such as the automatic indexing of surgical video databases and the optimization of real-time operating room scheduling, among others. As a result, phase recognition has been studied in the context of several kinds of surgeries, such as cataract, neurological, and laparoscopic surgeries. In the literature, two types of features are typically used to perform this task: visual features and tool usage signals. However, the visual features used are mostly handcrafted. Furthermore, the tool usage signals are usually collected via a manual annotation process or by using additional equipment. In this paper, we propose a novel method for phase recognition that uses a convolutional neural network (CNN) to automatically learn features from cholecystectomy videos and that relies uniquely on visual information. In previous studies, it has been shown that the tool signals can provide valuable information in performing the phase recognition task. Thus, we present a novel CNN architecture, called EndoNet, that is designed to carry out the phase recognition and tool presence detection tasks in a multi-task manner. To the best of our knowledge, this is the first work proposing to use a CNN for multiple recognition tasks on laparoscopic videos. Extensive experimental comparisons to other methods show that EndoNet yields state-of-the-art results for both tasks.

D3G: Exploring Gaussian Prior for Temporal Sentence Grounding with Glance Annotation

Temporal sentence grounding (TSG) aims to locate a specific moment from an untrimmed video with a given natural language query. Recently, weakly supervised methods still have a large performance gap compared to fully supervised ones, while the latter requires laborious timestamp annotations. In this study, we aim to reduce the annotation cost yet keep competitive performance for TSG task compared to fully supervised ones. To achieve this goal, we investigate a recently proposed glance-supervised temporal sentence grounding task, which requires only single frame annotation (referred to as glance annotation) for each query. Under this setup, we propose a Dynamic Gaussian prior based Grounding framework with Glance annotation (D3G), which consists of a Semantic Alignment Group Contrastive Learning module (SA-GCL) and a Dynamic Gaussian prior Adjustment module (DGA). Specifically, SA-GCL samples reliable positive moments from a 2D temporal map via jointly leveraging Gaussian prior and semantic consistency, which contributes to aligning the positive sentence-moment pairs in the joint embedding space. Moreover, to alleviate the annotation bias resulting from glance annotation and model complex queries consisting of multiple events, we propose the DGA module, which adjusts the distribution dynamically to approximate the ground truth of target moments. Extensive experiments on three challenging benchmarks verify the effectiveness of the proposed D3G. It outperforms the state-of-the-art weakly supervised methods by a large margin and narrows the performance gap compared to fully supervised methods. Code is available at https://github.com/solicucu/D3G.

SPACE-2: Tree-Structured Semi-Supervised Contrastive Pre-training for Task-Oriented Dialog Understanding

Pre-training methods with contrastive learning objectives have shown remarkable success in dialog understanding tasks. However, current contrastive learning solely considers the self-augmented dialog samples as positive samples and treats all other dialog samples as negative ones, which enforces dissimilar representations even for dialogs that are semantically related. In this paper, we propose SPACE-2, a tree-structured pre-trained conversation model, which learns dialog representations from limited labeled dialogs and large-scale unlabeled dialog corpora via semi-supervised contrastive pre-training. Concretely, we first define a general semantic tree structure (STS) to unify the inconsistent annotation schema across different dialog datasets, so that the rich structural information stored in all labeled data can be exploited. Then we propose a novel multi-view score function to increase the relevance of all possible dialogs that share similar STSs and only push away other completely different dialogs during supervised contrastive pre-training. To fully exploit unlabeled dialogs, a basic self-supervised contrastive loss is also added to refine the learned representations. Experiments show that our method can achieve new state-of-the-art results on the DialoGLUE benchmark consisting of seven datasets and four popular dialog understanding tasks. For reproducibility, we release the code and data at https://github.com/AlibabaResearch/DAMO-ConvAI/tree/main/space-2.

DWIE: an entity-centric dataset for multi-task document-level information extraction

This paper presents DWIE, the 'Deutsche Welle corpus for Information Extraction', a newly created multi-task dataset that combines four main Information Extraction (IE) annotation subtasks: (i) Named Entity Recognition (NER), (ii) Coreference Resolution, (iii) Relation Extraction (RE), and (iv) Entity Linking. DWIE is conceived as an entity-centric dataset that describes interactions and properties of conceptual entities on the level of the complete document. This contrasts with currently dominant mention-driven approaches that start from the detection and classification of named entity mentions in individual sentences. Further, DWIE presented two main challenges when building and evaluating IE models for it. First, the use of traditional mention-level evaluation metrics for NER and RE tasks on entity-centric DWIE dataset can result in measurements dominated by predictions on more frequently mentioned entities. We tackle this issue by proposing a new entity-driven metric that takes into account the number of mentions that compose each of the predicted and ground truth entities. Second, the document-level multi-task annotations require the models to transfer information between entity mentions located in different parts of the document, as well as between different tasks, in a joint learning setting. To realize this, we propose to use graph-based neural message passing techniques between document-level mention spans. Our experiments show an improvement of up to 5.5 F1 percentage points when incorporating neural graph propagation into our joint model. This demonstrates DWIE's potential to stimulate further research in graph neural networks for representation learning in multi-task IE. We make DWIE publicly available at https://github.com/klimzaporojets/DWIE.

The devil is in the object boundary: towards annotation-free instance segmentation using Foundation Models

Foundation models, pre-trained on a large amount of data have demonstrated impressive zero-shot capabilities in various downstream tasks. However, in object detection and instance segmentation, two fundamental computer vision tasks heavily reliant on extensive human annotations, foundation models such as SAM and DINO struggle to achieve satisfactory performance. In this study, we reveal that the devil is in the object boundary, i.e., these foundation models fail to discern boundaries between individual objects. For the first time, we probe that CLIP, which has never accessed any instance-level annotations, can provide a highly beneficial and strong instance-level boundary prior in the clustering results of its particular intermediate layer. Following this surprising observation, we propose Zip which Zips up CLip and SAM in a novel classification-first-then-discovery pipeline, enabling annotation-free, complex-scene-capable, open-vocabulary object detection and instance segmentation. Our Zip significantly boosts SAM's mask AP on COCO dataset by 12.5% and establishes state-of-the-art performance in various settings, including training-free, self-training, and label-efficient finetuning. Furthermore, annotation-free Zip even achieves comparable performance to the best-performing open-vocabulary object detecters using base annotations. Code is released at https://github.com/ChengShiest/Zip-Your-CLIP

FineBio: A Fine-Grained Video Dataset of Biological Experiments with Hierarchical Annotation

In the development of science, accurate and reproducible documentation of the experimental process is crucial. Automatic recognition of the actions in experiments from videos would help experimenters by complementing the recording of experiments. Towards this goal, we propose FineBio, a new fine-grained video dataset of people performing biological experiments. The dataset consists of multi-view videos of 32 participants performing mock biological experiments with a total duration of 14.5 hours. One experiment forms a hierarchical structure, where a protocol consists of several steps, each further decomposed into a set of atomic operations. The uniqueness of biological experiments is that while they require strict adherence to steps described in each protocol, there is freedom in the order of atomic operations. We provide hierarchical annotation on protocols, steps, atomic operations, object locations, and their manipulation states, providing new challenges for structured activity understanding and hand-object interaction recognition. To find out challenges on activity understanding in biological experiments, we introduce baseline models and results on four different tasks, including (i) step segmentation, (ii) atomic operation detection (iii) object detection, and (iv) manipulated/affected object detection. Dataset and code are available from https://github.com/aistairc/FineBio.

T2Ranking: A large-scale Chinese Benchmark for Passage Ranking

Passage ranking involves two stages: passage retrieval and passage re-ranking, which are important and challenging topics for both academics and industries in the area of Information Retrieval (IR). However, the commonly-used datasets for passage ranking usually focus on the English language. For non-English scenarios, such as Chinese, the existing datasets are limited in terms of data scale, fine-grained relevance annotation and false negative issues. To address this problem, we introduce T2Ranking, a large-scale Chinese benchmark for passage ranking. T2Ranking comprises more than 300K queries and over 2M unique passages from real-world search engines. Expert annotators are recruited to provide 4-level graded relevance scores (fine-grained) for query-passage pairs instead of binary relevance judgments (coarse-grained). To ease the false negative issues, more passages with higher diversities are considered when performing relevance annotations, especially in the test set, to ensure a more accurate evaluation. Apart from the textual query and passage data, other auxiliary resources are also provided, such as query types and XML files of documents which passages are generated from, to facilitate further studies. To evaluate the dataset, commonly used ranking models are implemented and tested on T2Ranking as baselines. The experimental results show that T2Ranking is challenging and there is still scope for improvement. The full data and all codes are available at https://github.com/THUIR/T2Ranking/

TeClass: A Human-Annotated Relevance-based Headline Classification and Generation Dataset for Telugu

News headline generation is a crucial task in increasing productivity for both the readers and producers of news. This task can easily be aided by automated News headline-generation models. However, the presence of irrelevant headlines in scraped news articles results in sub-optimal performance of generation models. We propose that relevance-based headline classification can greatly aid the task of generating relevant headlines. Relevance-based headline classification involves categorizing news headlines based on their relevance to the corresponding news articles. While this task is well-established in English, it remains under-explored in low-resource languages like Telugu due to a lack of annotated data. To address this gap, we present TeClass, the first-ever human-annotated Telugu news headline classification dataset, containing 78,534 annotations across 26,178 article-headline pairs. We experiment with various baseline models and provide a comprehensive analysis of their results. We further demonstrate the impact of this work by fine-tuning various headline generation models using TeClass dataset. The headlines generated by the models fine-tuned on highly relevant article-headline pairs, showed about a 5 point increment in the ROUGE-L scores. To encourage future research, the annotated dataset as well as the annotation guidelines will be made publicly available.

README: Bridging Medical Jargon and Lay Understanding for Patient Education through Data-Centric NLP

The advancement in healthcare has shifted focus toward patient-centric approaches, particularly in self-care and patient education, facilitated by access to Electronic Health Records (EHR). However, medical jargon in EHRs poses significant challenges in patient comprehension. To address this, we introduce a new task of automatically generating lay definitions, aiming to simplify complex medical terms into patient-friendly lay language. We first created the README dataset, an extensive collection of over 50,000 unique (medical term, lay definition) pairs and 300,000 mentions, each offering context-aware lay definitions manually annotated by domain experts. We have also engineered a data-centric Human-AI pipeline that synergizes data filtering, augmentation, and selection to improve data quality. We then used README as the training data for models and leveraged a Retrieval-Augmented Generation method to reduce hallucinations and improve the quality of model outputs. Our extensive automatic and human evaluations demonstrate that open-source mobile-friendly models, when fine-tuned with high-quality data, are capable of matching or even surpassing the performance of state-of-the-art closed-source large language models like ChatGPT. This research represents a significant stride in closing the knowledge gap in patient education and advancing patient-centric healthcare solutions.

ScienceAgentBench: Toward Rigorous Assessment of Language Agents for Data-Driven Scientific Discovery

The advancements of language language models (LLMs) have piqued growing interest in developing LLM-based language agents to automate scientific discovery end-to-end, which has sparked both excitement and skepticism about the true capabilities of such agents. In this work, we argue that for an agent to fully automate scientific discovery, it must be able to complete all essential tasks in the workflow. Thus, we call for rigorous assessment of agents on individual tasks in a scientific workflow before making bold claims on end-to-end automation. To this end, we present ScienceAgentBench, a new benchmark for evaluating language agents for data-driven scientific discovery. To ensure the scientific authenticity and real-world relevance of our benchmark, we extract 102 tasks from 44 peer-reviewed publications in four disciplines and engage nine subject matter experts to validate them. We unify the target output for every task to a self-contained Python program file and employ an array of evaluation metrics to examine the generated programs, execution results, and costs. Each task goes through multiple rounds of manual validation by annotators and subject matter experts to ensure its annotation quality and scientific plausibility. We also propose two effective strategies to mitigate data contamination concerns. Using our benchmark, we evaluate five open-weight and proprietary LLMs, each with three frameworks: direct prompting, OpenHands, and self-debug. Given three attempts for each task, the best-performing agent can only solve 32.4% of the tasks independently and 34.3% with expert-provided knowledge. These results underscore the limited capacities of current language agents in generating code for data-driven discovery, let alone end-to-end automation for scientific research.

A Multi-Modal AI Copilot for Single-Cell Analysis with Instruction Following

Large language models excel at interpreting complex natural language instructions, enabling them to perform a wide range of tasks. In the life sciences, single-cell RNA sequencing (scRNA-seq) data serves as the "language of cellular biology", capturing intricate gene expression patterns at the single-cell level. However, interacting with this "language" through conventional tools is often inefficient and unintuitive, posing challenges for researchers. To address these limitations, we present InstructCell, a multi-modal AI copilot that leverages natural language as a medium for more direct and flexible single-cell analysis. We construct a comprehensive multi-modal instruction dataset that pairs text-based instructions with scRNA-seq profiles from diverse tissues and species. Building on this, we develop a multi-modal cell language architecture capable of simultaneously interpreting and processing both modalities. InstructCell empowers researchers to accomplish critical tasks-such as cell type annotation, conditional pseudo-cell generation, and drug sensitivity prediction-using straightforward natural language commands. Extensive evaluations demonstrate that InstructCell consistently meets or exceeds the performance of existing single-cell foundation models, while adapting to diverse experimental conditions. More importantly, InstructCell provides an accessible and intuitive tool for exploring complex single-cell data, lowering technical barriers and enabling deeper biological insights.

GroundVLP: Harnessing Zero-shot Visual Grounding from Vision-Language Pre-training and Open-Vocabulary Object Detection

Visual grounding, a crucial vision-language task involving the understanding of the visual context based on the query expression, necessitates the model to capture the interactions between objects, as well as various spatial and attribute information. However, the annotation data of visual grounding task is limited due to its time-consuming and labor-intensive annotation process, resulting in the trained models being constrained from generalizing its capability to a broader domain. To address this challenge, we propose GroundVLP, a simple yet effective zero-shot method that harnesses visual grounding ability from the existing models trained from image-text pairs and pure object detection data, both of which are more conveniently obtainable and offer a broader domain compared to visual grounding annotation data. GroundVLP proposes a fusion mechanism that combines the heatmap from GradCAM and the object proposals of open-vocabulary detectors. We demonstrate that the proposed method significantly outperforms other zero-shot methods on RefCOCO/+/g datasets, surpassing prior zero-shot state-of-the-art by approximately 28\% on the test split of RefCOCO and RefCOCO+. Furthermore, GroundVLP performs comparably to or even better than some non-VLP-based supervised models on the Flickr30k entities dataset. Our code is available at https://github.com/om-ai-lab/GroundVLP.

A New Benchmark: On the Utility of Synthetic Data with Blender for Bare Supervised Learning and Downstream Domain Adaptation

Deep learning in computer vision has achieved great success with the price of large-scale labeled training data. However, exhaustive data annotation is impracticable for each task of all domains of interest, due to high labor costs and unguaranteed labeling accuracy. Besides, the uncontrollable data collection process produces non-IID training and test data, where undesired duplication may exist. All these nuisances may hinder the verification of typical theories and exposure to new findings. To circumvent them, an alternative is to generate synthetic data via 3D rendering with domain randomization. We in this work push forward along this line by doing profound and extensive research on bare supervised learning and downstream domain adaptation. Specifically, under the well-controlled, IID data setting enabled by 3D rendering, we systematically verify the typical, important learning insights, e.g., shortcut learning, and discover the new laws of various data regimes and network architectures in generalization. We further investigate the effect of image formation factors on generalization, e.g., object scale, material texture, illumination, camera viewpoint, and background in a 3D scene. Moreover, we use the simulation-to-reality adaptation as a downstream task for comparing the transferability between synthetic and real data when used for pre-training, which demonstrates that synthetic data pre-training is also promising to improve real test results. Lastly, to promote future research, we develop a new large-scale synthetic-to-real benchmark for image classification, termed S2RDA, which provides more significant challenges for transfer from simulation to reality. The code and datasets are available at https://github.com/huitangtang/On_the_Utility_of_Synthetic_Data.

T2Vs Meet VLMs: A Scalable Multimodal Dataset for Visual Harmfulness Recognition

To address the risks of encountering inappropriate or harmful content, researchers managed to incorporate several harmful contents datasets with machine learning methods to detect harmful concepts. However, existing harmful datasets are curated by the presence of a narrow range of harmful objects, and only cover real harmful content sources. This hinders the generalizability of methods based on such datasets, potentially leading to misjudgments. Therefore, we propose a comprehensive harmful dataset, Visual Harmful Dataset 11K (VHD11K), consisting of 10,000 images and 1,000 videos, crawled from the Internet and generated by 4 generative models, across a total of 10 harmful categories covering a full spectrum of harmful concepts with nontrivial definition. We also propose a novel annotation framework by formulating the annotation process as a multi-agent Visual Question Answering (VQA) task, having 3 different VLMs "debate" about whether the given image/video is harmful, and incorporating the in-context learning strategy in the debating process. Therefore, we can ensure that the VLMs consider the context of the given image/video and both sides of the arguments thoroughly before making decisions, further reducing the likelihood of misjudgments in edge cases. Evaluation and experimental results demonstrate that (1) the great alignment between the annotation from our novel annotation framework and those from human, ensuring the reliability of VHD11K; (2) our full-spectrum harmful dataset successfully identifies the inability of existing harmful content detection methods to detect extensive harmful contents and improves the performance of existing harmfulness recognition methods; (3) VHD11K outperforms the baseline dataset, SMID, as evidenced by the superior improvement in harmfulness recognition methods. The complete dataset and code can be found at https://github.com/nctu-eva-lab/VHD11K.

$A^2$Nav: Action-Aware Zero-Shot Robot Navigation by Exploiting Vision-and-Language Ability of Foundation Models

We study the task of zero-shot vision-and-language navigation (ZS-VLN), a practical yet challenging problem in which an agent learns to navigate following a path described by language instructions without requiring any path-instruction annotation data. Normally, the instructions have complex grammatical structures and often contain various action descriptions (e.g., "proceed beyond", "depart from"). How to correctly understand and execute these action demands is a critical problem, and the absence of annotated data makes it even more challenging. Note that a well-educated human being can easily understand path instructions without the need for any special training. In this paper, we propose an action-aware zero-shot VLN method (A^2Nav) by exploiting the vision-and-language ability of foundation models. Specifically, the proposed method consists of an instruction parser and an action-aware navigation policy. The instruction parser utilizes the advanced reasoning ability of large language models (e.g., GPT-3) to decompose complex navigation instructions into a sequence of action-specific object navigation sub-tasks. Each sub-task requires the agent to localize the object and navigate to a specific goal position according to the associated action demand. To accomplish these sub-tasks, an action-aware navigation policy is learned from freely collected action-specific datasets that reveal distinct characteristics of each action demand. We use the learned navigation policy for executing sub-tasks sequentially to follow the navigation instruction. Extensive experiments show A^2Nav achieves promising ZS-VLN performance and even surpasses the supervised learning methods on R2R-Habitat and RxR-Habitat datasets.

PINTO: Faithful Language Reasoning Using Prompt-Generated Rationales

Neural language models (LMs) have achieved impressive results on various language-based reasoning tasks by utilizing latent knowledge encoded in their own pretrained parameters. To make this reasoning process more explicit, recent works retrieve a rationalizing LM's internal knowledge by training or prompting it to generate free-text rationales, which can be used to guide task predictions made by either the same LM or a separate reasoning LM. However, rationalizing LMs require expensive rationale annotation and/or computation, without any assurance that their generated rationales improve LM task performance or faithfully reflect LM decision-making. In this paper, we propose PINTO, an LM pipeline that rationalizes via prompt-based learning, and learns to faithfully reason over rationales via counterfactual regularization. First, PINTO maps out a suitable reasoning process for the task input by prompting a frozen rationalizing LM to generate a free-text rationale. Second, PINTO's reasoning LM is fine-tuned to solve the task using the generated rationale as context, while regularized to output less confident predictions when the rationale is perturbed. Across four datasets, we show that PINTO significantly improves the generalization ability of the reasoning LM, yielding higher performance on both in-distribution and out-of-distribution test sets. Also, we find that PINTO's rationales are more faithful to its task predictions than those generated by competitive baselines.

CsFEVER and CTKFacts: Acquiring Czech data for fact verification

In this paper, we examine several methods of acquiring Czech data for automated fact-checking, which is a task commonly modeled as a classification of textual claim veracity w.r.t. a corpus of trusted ground truths. We attempt to collect sets of data in form of a factual claim, evidence within the ground truth corpus, and its veracity label (supported, refuted or not enough info). As a first attempt, we generate a Czech version of the large-scale FEVER dataset built on top of Wikipedia corpus. We take a hybrid approach of machine translation and document alignment; the approach and the tools we provide can be easily applied to other languages. We discuss its weaknesses and inaccuracies, propose a future approach for their cleaning and publish the 127k resulting translations, as well as a version of such dataset reliably applicable for the Natural Language Inference task - the CsFEVER-NLI. Furthermore, we collect a novel dataset of 3,097 claims, which is annotated using the corpus of 2.2M articles of Czech News Agency. We present its extended annotation methodology based on the FEVER approach, and, as the underlying corpus is kept a trade secret, we also publish a standalone version of the dataset for the task of Natural Language Inference we call CTKFactsNLI. We analyze both acquired datasets for spurious cues - annotation patterns leading to model overfitting. CTKFacts is further examined for inter-annotator agreement, thoroughly cleaned, and a typology of common annotator errors is extracted. Finally, we provide baseline models for all stages of the fact-checking pipeline and publish the NLI datasets, as well as our annotation platform and other experimental data.

Adaptive Early-Learning Correction for Segmentation from Noisy Annotations

Deep learning in the presence of noisy annotations has been studied extensively in classification, but much less in segmentation tasks. In this work, we study the learning dynamics of deep segmentation networks trained on inaccurately-annotated data. We discover a phenomenon that has been previously reported in the context of classification: the networks tend to first fit the clean pixel-level labels during an "early-learning" phase, before eventually memorizing the false annotations. However, in contrast to classification, memorization in segmentation does not arise simultaneously for all semantic categories. Inspired by these findings, we propose a new method for segmentation from noisy annotations with two key elements. First, we detect the beginning of the memorization phase separately for each category during training. This allows us to adaptively correct the noisy annotations in order to exploit early learning. Second, we incorporate a regularization term that enforces consistency across scales to boost robustness against annotation noise. Our method outperforms standard approaches on a medical-imaging segmentation task where noises are synthesized to mimic human annotation errors. It also provides robustness to realistic noisy annotations present in weakly-supervised semantic segmentation, achieving state-of-the-art results on PASCAL VOC 2012. Code is available at https://github.com/Kangningthu/ADELE

TicketTalk: Toward human-level performance with end-to-end, transaction-based dialog systems

We present a data-driven, end-to-end approach to transaction-based dialog systems that performs at near-human levels in terms of verbal response quality and factual grounding accuracy. We show that two essential components of the system produce these results: a sufficiently large and diverse, in-domain labeled dataset, and a neural network-based, pre-trained model that generates both verbal responses and API call predictions. In terms of data, we introduce TicketTalk, a movie ticketing dialog dataset with 23,789 annotated conversations. The movie ticketing conversations range from completely open-ended and unrestricted to more structured, both in terms of their knowledge base, discourse features, and number of turns. In qualitative human evaluations, model-generated responses trained on just 10,000 TicketTalk dialogs were rated to "make sense" 86.5 percent of the time, almost the same as human responses in the same contexts. Our simple, API-focused annotation schema results in a much easier labeling task making it faster and more cost effective. It is also the key component for being able to predict API calls accurately. We handle factual grounding by incorporating API calls in the training data, allowing our model to learn which actions to take and when. Trained on the same 10,000-dialog set, the model's API call predictions were rated to be correct 93.9 percent of the time in our evaluations, surpassing the ratings for the corresponding human labels. We show how API prediction and response generation scores improve as the dataset size incrementally increases from 5000 to 21,000 dialogs. Our analysis also clearly illustrates the benefits of pre-training. We are publicly releasing the TicketTalk dataset with this paper to facilitate future work on transaction-based dialogs.

MomentSeeker: A Comprehensive Benchmark and A Strong Baseline For Moment Retrieval Within Long Videos

Retrieval augmented generation (RAG) holds great promise in addressing challenges associated with long video understanding. These methods retrieve useful moments from long videos for their presented tasks, thereby enabling multimodal large language models (MLLMs) to generate high-quality answers in a cost-effective way. In this work, we present MomentSeeker, a comprehensive benchmark to evaluate retrieval models' performance in handling general long-video moment retrieval (LVMR) tasks. MomentSeeker offers three key advantages. First, it incorporates long videos of over 500 seconds on average, making it the first benchmark specialized for long-video moment retrieval. Second, it covers a wide range of task categories (including Moment Search, Caption Alignment, Image-conditioned Moment Search, and Video-conditioned Moment Search) and diverse application scenarios (e.g., sports, movies, cartoons, and ego), making it a comprehensive tool for assessing retrieval models' general LVMR performance. Additionally, the evaluation tasks are carefully curated through human annotation, ensuring the reliability of assessment. We further fine-tune an MLLM-based LVMR retriever on synthetic data, which demonstrates strong performance on our benchmark. We perform extensive experiments with various popular multimodal retrievers based on our benchmark, whose results highlight the challenges of LVMR and limitations for existing methods. Our created resources will be shared with community to advance future research in this field.

A Simple Framework for Open-Vocabulary Segmentation and Detection

We present OpenSeeD, a simple Open-vocabulary Segmentation and Detection framework that jointly learns from different segmentation and detection datasets. To bridge the gap of vocabulary and annotation granularity, we first introduce a pre-trained text encoder to encode all the visual concepts in two tasks and learn a common semantic space for them. This gives us reasonably good results compared with the counterparts trained on segmentation task only. To further reconcile them, we locate two discrepancies: i) task discrepancy -- segmentation requires extracting masks for both foreground objects and background stuff, while detection merely cares about the former; ii) data discrepancy -- box and mask annotations are with different spatial granularity, and thus not directly interchangeable. To address these issues, we propose a decoupled decoding to reduce the interference between foreground/background and a conditioned mask decoding to assist in generating masks for given boxes. To this end, we develop a simple encoder-decoder model encompassing all three techniques and train it jointly on COCO and Objects365. After pre-training, our model exhibits competitive or stronger zero-shot transferability for both segmentation and detection. Specifically, OpenSeeD beats the state-of-the-art method for open-vocabulary instance and panoptic segmentation across 5 datasets, and outperforms previous work for open-vocabulary detection on LVIS and ODinW under similar settings. When transferred to specific tasks, our model achieves new SoTA for panoptic segmentation on COCO and ADE20K, and instance segmentation on ADE20K and Cityscapes. Finally, we note that OpenSeeD is the first to explore the potential of joint training on segmentation and detection, and hope it can be received as a strong baseline for developing a single model for both tasks in open world.

Qwen-Audio: Advancing Universal Audio Understanding via Unified Large-Scale Audio-Language Models

Recently, instruction-following audio-language models have received broad attention for audio interaction with humans. However, the absence of pre-trained audio models capable of handling diverse audio types and tasks has hindered progress in this field. Consequently, most existing works have only been able to support a limited range of interaction capabilities. In this paper, we develop the Qwen-Audio model and address this limitation by scaling up audio-language pre-training to cover over 30 tasks and various audio types, such as human speech, natural sounds, music, and songs, to facilitate universal audio understanding abilities. However, directly co-training all tasks and datasets can lead to interference issues, as the textual labels associated with different datasets exhibit considerable variations due to differences in task focus, language, granularity of annotation, and text structure. To overcome the one-to-many interference, we carefully design a multi-task training framework by conditioning on a sequence of hierarchical tags to the decoder for encouraging knowledge sharing and avoiding interference through shared and specified tags respectively. Remarkably, Qwen-Audio achieves impressive performance across diverse benchmark tasks without requiring any task-specific fine-tuning, surpassing its counterparts. Building upon the capabilities of Qwen-Audio, we further develop Qwen-Audio-Chat, which allows for input from various audios and text inputs, enabling multi-turn dialogues and supporting various audio-central scenarios.

AnnoLLM: Making Large Language Models to Be Better Crowdsourced Annotators

Many natural language processing (NLP) tasks rely on labeled data to train machine learning models to achieve high performance. However, data annotation can be a time-consuming and expensive process, especially when the task involves a large amount of data or requires specialized domains. Recently, GPT-3.5 series models have demonstrated remarkable few-shot and zero-shot ability across various NLP tasks. In this paper, we first claim that large language models (LLMs), such as GPT-3.5, can serve as an excellent crowdsourced annotator by providing them with sufficient guidance and demonstrated examples. To make LLMs to be better annotators, we propose a two-step approach, 'explain-then-annotate'. To be more precise, we begin by creating prompts for every demonstrated example, which we subsequently utilize to prompt a LLM to provide an explanation for why the specific ground truth answer/label was chosen for that particular example. Following this, we construct the few-shot chain-of-thought prompt with the self-generated explanation and employ it to annotate the unlabeled data. We conduct experiments on three tasks, including user input and keyword relevance assessment, BoolQ and WiC. The annotation results from GPT-3.5 surpasses those from crowdsourced annotation for user input and keyword relevance assessment. Additionally, for the other two tasks, GPT-3.5 achieves results that are comparable to those obtained through crowdsourced annotation.

HiNER: A Large Hindi Named Entity Recognition Dataset

Named Entity Recognition (NER) is a foundational NLP task that aims to provide class labels like Person, Location, Organisation, Time, and Number to words in free text. Named Entities can also be multi-word expressions where the additional I-O-B annotation information helps label them during the NER annotation process. While English and European languages have considerable annotated data for the NER task, Indian languages lack on that front -- both in terms of quantity and following annotation standards. This paper releases a significantly sized standard-abiding Hindi NER dataset containing 109,146 sentences and 2,220,856 tokens, annotated with 11 tags. We discuss the dataset statistics in all their essential detail and provide an in-depth analysis of the NER tag-set used with our data. The statistics of tag-set in our dataset show a healthy per-tag distribution, especially for prominent classes like Person, Location and Organisation. Since the proof of resource-effectiveness is in building models with the resource and testing the model on benchmark data and against the leader-board entries in shared tasks, we do the same with the aforesaid data. We use different language models to perform the sequence labelling task for NER and show the efficacy of our data by performing a comparative evaluation with models trained on another dataset available for the Hindi NER task. Our dataset helps achieve a weighted F1 score of 88.78 with all the tags and 92.22 when we collapse the tag-set, as discussed in the paper. To the best of our knowledge, no available dataset meets the standards of volume (amount) and variability (diversity), as far as Hindi NER is concerned. We fill this gap through this work, which we hope will significantly help NLP for Hindi. We release this dataset with our code and models at https://github.com/cfiltnlp/HiNER

CLIP2Scene: Towards Label-efficient 3D Scene Understanding by CLIP

Contrastive Language-Image Pre-training (CLIP) achieves promising results in 2D zero-shot and few-shot learning. Despite the impressive performance in 2D, applying CLIP to help the learning in 3D scene understanding has yet to be explored. In this paper, we make the first attempt to investigate how CLIP knowledge benefits 3D scene understanding. We propose CLIP2Scene, a simple yet effective framework that transfers CLIP knowledge from 2D image-text pre-trained models to a 3D point cloud network. We show that the pre-trained 3D network yields impressive performance on various downstream tasks, i.e., annotation-free and fine-tuning with labelled data for semantic segmentation. Specifically, built upon CLIP, we design a Semantic-driven Cross-modal Contrastive Learning framework that pre-trains a 3D network via semantic and spatial-temporal consistency regularization. For the former, we first leverage CLIP's text semantics to select the positive and negative point samples and then employ the contrastive loss to train the 3D network. In terms of the latter, we force the consistency between the temporally coherent point cloud features and their corresponding image features. We conduct experiments on SemanticKITTI, nuScenes, and ScanNet. For the first time, our pre-trained network achieves annotation-free 3D semantic segmentation with 20.8% and 25.08% mIoU on nuScenes and ScanNet, respectively. When fine-tuned with 1% or 100% labelled data, our method significantly outperforms other self-supervised methods, with improvements of 8% and 1% mIoU, respectively. Furthermore, we demonstrate the generalizability for handling cross-domain datasets. Code is publicly available https://github.com/runnanchen/CLIP2Scene.

OmniVid: A Generative Framework for Universal Video Understanding

The core of video understanding tasks, such as recognition, captioning, and tracking, is to automatically detect objects or actions in a video and analyze their temporal evolution. Despite sharing a common goal, different tasks often rely on distinct model architectures and annotation formats. In contrast, natural language processing benefits from a unified output space, i.e., text sequences, which simplifies the training of powerful foundational language models, such as GPT-3, with extensive training corpora. Inspired by this, we seek to unify the output space of video understanding tasks by using languages as labels and additionally introducing time and box tokens. In this way, a variety of video tasks could be formulated as video-grounded token generation. This enables us to address various types of video tasks, including classification (such as action recognition), captioning (covering clip captioning, video question answering, and dense video captioning), and localization tasks (such as visual object tracking) within a fully shared encoder-decoder architecture, following a generative framework. Through comprehensive experiments, we demonstrate such a simple and straightforward idea is quite effective and can achieve state-of-the-art or competitive results on seven video benchmarks, providing a novel perspective for more universal video understanding. Code is available at https://github.com/wangjk666/OmniVid.

Open-Vocabulary Camouflaged Object Segmentation

Recently, the emergence of the large-scale vision-language model (VLM), such as CLIP, has opened the way towards open-world object perception. Many works have explored the utilization of pre-trained VLM for the challenging open-vocabulary dense prediction task that requires perceiving diverse objects with novel classes at inference time. Existing methods construct experiments based on the public datasets of related tasks, which are not tailored for open vocabulary and rarely involve imperceptible objects camouflaged in complex scenes due to data collection bias and annotation costs. To fill in the gaps, we introduce a new task, open-vocabulary camouflaged object segmentation (OVCOS), and construct a large-scale complex scene dataset (OVCamo) containing 11,483 hand-selected images with fine annotations and corresponding object classes. Further, we build a strong single-stage open-vocabulary camouflaged object segmentation transformer baseline OVCoser attached to the parameter-fixed CLIP with iterative semantic guidance and structure enhancement. By integrating the guidance of class semantic knowledge and the supplement of visual structure cues from the edge and depth information, the proposed method can efficiently capture camouflaged objects. Moreover, this effective framework also surpasses previous state-of-the-arts of open-vocabulary semantic image segmentation by a large margin on our OVCamo dataset. With the proposed dataset and baseline, we hope that this new task with more practical value can further expand the research on open-vocabulary dense prediction tasks. Our code and data can be found in the https://github.com/lartpang/OVCamo{link}.

Structural Text Segmentation of Legal Documents

The growing complexity of legal cases has lead to an increasing interest in legal information retrieval systems that can effectively satisfy user-specific information needs. However, such downstream systems typically require documents to be properly formatted and segmented, which is often done with relatively simple pre-processing steps, disregarding topical coherence of segments. Systems generally rely on representations of individual sentences or paragraphs, which may lack crucial context, or document-level representations, which are too long for meaningful search results. To address this issue, we propose a segmentation system that can predict topical coherence of sequential text segments spanning several paragraphs, effectively segmenting a document and providing a more balanced representation for downstream applications. We build our model on top of popular transformer networks and formulate structural text segmentation as topical change detection, by performing a series of independent classifications that allow for efficient fine-tuning on task-specific data. We crawl a novel dataset consisting of roughly 74,000 online Terms-of-Service documents, including hierarchical topic annotations, which we use for training. Results show that our proposed system significantly outperforms baselines, and adapts well to structural peculiarities of legal documents. We release both data and trained models to the research community for future work.https://github.com/dennlinger/TopicalChange

Instruction-guided Multi-Granularity Segmentation and Captioning with Large Multimodal Model

Large Multimodal Models (LMMs) have achieved significant progress by extending large language models. Building on this progress, the latest developments in LMMs demonstrate the ability to generate dense pixel-wise segmentation through the integration of segmentation models.Despite the innovations, the textual responses and segmentation masks of existing works remain at the instance level, showing limited ability to perform fine-grained understanding and segmentation even provided with detailed textual cues.To overcome this limitation, we introduce a Multi-Granularity Large Multimodal Model (MGLMM), which is capable of seamlessly adjusting the granularity of Segmentation and Captioning (SegCap) following user instructions, from panoptic SegCap to fine-grained SegCap. We name such a new task Multi-Granularity Segmentation and Captioning (MGSC). Observing the lack of a benchmark for model training and evaluation over the MGSC task, we establish a benchmark with aligned masks and captions in multi-granularity using our customized automated annotation pipeline. This benchmark comprises 10K images and more than 30K image-question pairs. We will release our dataset along with the implementation of our automated dataset annotation pipeline for further research.Besides, we propose a novel unified SegCap data format to unify heterogeneous segmentation datasets; it effectively facilitates learning to associate object concepts with visual features during multi-task training. Extensive experiments demonstrate that our MGLMM excels at tackling more than eight downstream tasks and achieves state-of-the-art performance in MGSC, GCG, image captioning, referring segmentation, multiple and empty segmentation, and reasoning segmentation tasks. The great performance and versatility of MGLMM underscore its potential impact on advancing multimodal research.

Rethinking Surgical Instrument Segmentation: A Background Image Can Be All You Need

Data diversity and volume are crucial to the success of training deep learning models, while in the medical imaging field, the difficulty and cost of data collection and annotation are especially huge. Specifically in robotic surgery, data scarcity and imbalance have heavily affected the model accuracy and limited the design and deployment of deep learning-based surgical applications such as surgical instrument segmentation. Considering this, we rethink the surgical instrument segmentation task and propose a one-to-many data generation solution that gets rid of the complicated and expensive process of data collection and annotation from robotic surgery. In our method, we only utilize a single surgical background tissue image and a few open-source instrument images as the seed images and apply multiple augmentations and blending techniques to synthesize amounts of image variations. In addition, we also introduce the chained augmentation mixing during training to further enhance the data diversities. The proposed approach is evaluated on the real datasets of the EndoVis-2018 and EndoVis-2017 surgical scene segmentation. Our empirical analysis suggests that without the high cost of data collection and annotation, we can achieve decent surgical instrument segmentation performance. Moreover, we also observe that our method can deal with novel instrument prediction in the deployment domain. We hope our inspiring results will encourage researchers to emphasize data-centric methods to overcome demanding deep learning limitations besides data shortage, such as class imbalance, domain adaptation, and incremental learning. Our code is available at https://github.com/lofrienger/Single_SurgicalScene_For_Segmentation.

Coreset Sampling from Open-Set for Fine-Grained Self-Supervised Learning

Deep learning in general domains has constantly been extended to domain-specific tasks requiring the recognition of fine-grained characteristics. However, real-world applications for fine-grained tasks suffer from two challenges: a high reliance on expert knowledge for annotation and necessity of a versatile model for various downstream tasks in a specific domain (e.g., prediction of categories, bounding boxes, or pixel-wise annotations). Fortunately, the recent self-supervised learning (SSL) is a promising approach to pretrain a model without annotations, serving as an effective initialization for any downstream tasks. Since SSL does not rely on the presence of annotation, in general, it utilizes the large-scale unlabeled dataset, referred to as an open-set. In this sense, we introduce a novel Open-Set Self-Supervised Learning problem under the assumption that a large-scale unlabeled open-set is available, as well as the fine-grained target dataset, during a pretraining phase. In our problem setup, it is crucial to consider the distribution mismatch between the open-set and target dataset. Hence, we propose SimCore algorithm to sample a coreset, the subset of an open-set that has a minimum distance to the target dataset in the latent space. We demonstrate that SimCore significantly improves representation learning performance through extensive experimental settings, including eleven fine-grained datasets and seven open-sets in various downstream tasks.

A Dataset for the Validation of Truth Inference Algorithms Suitable for Online Deployment

For the purpose of efficient and cost-effective large-scale data labeling, crowdsourcing is increasingly being utilized. To guarantee the quality of data labeling, multiple annotations need to be collected for each data sample, and truth inference algorithms have been developed to accurately infer the true labels. Despite previous studies having released public datasets to evaluate the efficacy of truth inference algorithms, these have typically focused on a single type of crowdsourcing task and neglected the temporal information associated with workers' annotation activities. These limitations significantly restrict the practical applicability of these algorithms, particularly in the context of long-term and online truth inference. In this paper, we introduce a substantial crowdsourcing annotation dataset collected from a real-world crowdsourcing platform. This dataset comprises approximately two thousand workers, one million tasks, and six million annotations. The data was gathered over a period of approximately six months from various types of tasks, and the timestamps of each annotation were preserved. We analyze the characteristics of the dataset from multiple perspectives and evaluate the effectiveness of several representative truth inference algorithms on this dataset. We anticipate that this dataset will stimulate future research on tracking workers' abilities over time in relation to different types of tasks, as well as enhancing online truth inference.

Weakly Supervised Lesion Detection and Diagnosis for Breast Cancers with Partially Annotated Ultrasound Images

Deep learning (DL) has proven highly effective for ultrasound-based computer-aided diagnosis (CAD) of breast cancers. In an automaticCAD system, lesion detection is critical for the following diagnosis. However, existing DL-based methods generally require voluminous manually-annotated region of interest (ROI) labels and class labels to train both the lesion detection and diagnosis models. In clinical practice, the ROI labels, i.e. ground truths, may not always be optimal for the classification task due to individual experience of sonologists, resulting in the issue of coarse annotation that limits the diagnosis performance of a CAD model. To address this issue, a novel Two-Stage Detection and Diagnosis Network (TSDDNet) is proposed based on weakly supervised learning to enhance diagnostic accuracy of the ultrasound-based CAD for breast cancers. In particular, all the ROI-level labels are considered as coarse labels in the first training stage, and then a candidate selection mechanism is designed to identify optimallesion areas for both the fully and partially annotated samples. It refines the current ROI-level labels in the fully annotated images and the detected ROIs in the partially annotated samples with a weakly supervised manner under the guidance of class labels. In the second training stage, a self-distillation strategy further is further proposed to integrate the detection network and classification network into a unified framework as the final CAD model for joint optimization, which then further improves the diagnosis performance. The proposed TSDDNet is evaluated on a B-mode ultrasound dataset, and the experimental results show that it achieves the best performance on both lesion detection and diagnosis tasks, suggesting promising application potential.

Computer Science Named Entity Recognition in the Open Research Knowledge Graph

Domain-specific named entity recognition (NER) on Computer Science (CS) scholarly articles is an information extraction task that is arguably more challenging for the various annotation aims that can beset the task and has been less studied than NER in the general domain. Given that significant progress has been made on NER, we believe that scholarly domain-specific NER will receive increasing attention in the years to come. Currently, progress on CS NER -- the focus of this work -- is hampered in part by its recency and the lack of a standardized annotation aim for scientific entities/terms. This work proposes a standardized task by defining a set of seven contribution-centric scholarly entities for CS NER viz., research problem, solution, resource, language, tool, method, and dataset. Following which, its main contributions are: combines existing CS NER resources that maintain their annotation focus on the set or subset of contribution-centric scholarly entities we consider; further, noting the need for big data to train neural NER models, this work additionally supplies thousands of contribution-centric entity annotations from article titles and abstracts, thus releasing a cumulative large novel resource for CS NER; and, finally, trains a sequence labeling CS NER model inspired after state-of-the-art neural architectures from the general domain NER task. Throughout the work, several practical considerations are made which can be useful to information technology designers of the digital libraries.

GPT4Scene: Understand 3D Scenes from Videos with Vision-Language Models

In recent years, 2D Vision-Language Models (VLMs) have made significant strides in image-text understanding tasks. However, their performance in 3D spatial comprehension, which is critical for embodied intelligence, remains limited. Recent advances have leveraged 3D point clouds and multi-view images as inputs, yielding promising results. However, we propose exploring a purely vision-based solution inspired by human perception, which merely relies on visual cues for 3D spatial understanding. This paper empirically investigates the limitations of VLMs in 3D spatial knowledge, revealing that their primary shortcoming lies in the lack of global-local correspondence between the scene and individual frames. To address this, we introduce GPT4Scene, a novel visual prompting paradigm in VLM training and inference that helps build the global-local relationship, significantly improving the 3D spatial understanding of indoor scenes. Specifically, GPT4Scene constructs a 3D Bird's Eye View (BEV) image from the video and marks consistent object IDs across both frames and the BEV image. The model then inputs the concatenated BEV image and video frames with markers. In zero-shot evaluations, GPT4Scene improves performance over closed-source VLMs like GPT-4o. Additionally, we prepare a processed video dataset consisting of 165K text annotation to fine-tune open-source VLMs, achieving state-of-the-art performance on all 3D understanding tasks. Surprisingly, after training with the GPT4Scene paradigm, VLMs consistently improve during inference, even without visual prompting and BEV image as explicit correspondence. It demonstrates that the proposed paradigm helps VLMs develop an intrinsic ability to understand 3D scenes, which paves the way for a noninvasive approach to extending pre-trained VLMs for 3D scene understanding.

DMoERM: Recipes of Mixture-of-Experts for Effective Reward Modeling

The performance of the reward model (RM) is a critical factor in improving the effectiveness of the large language model (LLM) during alignment fine-tuning. There remain two challenges in RM training: 1) training the same RM using various categories of data may cause its generalization performance to suffer from multi-task disturbance, and 2) the human annotation consistency rate is generally only 60% to 75%, causing training data to contain a lot of noise. To tackle these two challenges, we introduced the idea of Mixture-of-Experts (MoE) into the field of RM for the first time. We propose the Double-Layer MoE RM (DMoERM). The outer layer MoE is a sparse model. After classifying an input into task categories, we route it to the corresponding inner layer task-specific model. The inner layer MoE is a dense model. We decompose the specific task into multiple capability dimensions and individually fine-tune a LoRA expert on each one. Their outputs are then synthesized by an MLP to compute the final rewards. To minimize costs, we call a public LLM API to obtain the capability preference labels. The validation on manually labeled datasets confirms that our model attains superior consistency with human preference and outstrips advanced generative approaches. Meanwhile, through BoN sampling and RL experiments, we demonstrate that our model outperforms state-of-the-art ensemble methods of RM and mitigates the overoptimization problem. Our code and dataset are available at: https://github.com/quanshr/DMoERM-v1.

Deep Learning Applied to Image and Text Matching

The ability to describe images with natural language sentences is the hallmark for image and language understanding. Such a system has wide ranging applications such as annotating images and using natural sentences to search for images.In this project we focus on the task of bidirectional image retrieval: such asystem is capable of retrieving an image based on a sentence (image search) andretrieve sentence based on an image query (image annotation). We present asystem based on a global ranking objective function which uses a combinationof convolutional neural networks (CNN) and multi layer perceptrons (MLP).It takes a pair of image and sentence and processes them in different channels,finally embedding it into a common multimodal vector space. These embeddingsencode abstract semantic information about the two inputs and can be comparedusing traditional information retrieval approaches. For each such pair, the modelreturns a score which is interpretted as a similarity metric. If this score is high,the image and sentence are likely to convey similar meaning, and if the score is low then they are likely not to. The visual input is modeled via deep convolutional neural network. On theother hand we explore three models for the textual module. The first one isbag of words with an MLP. The second one uses n-grams (bigram, trigrams,and a combination of trigram & skip-grams) with an MLP. The third is morespecialized deep network specific for modeling variable length sequences (SSE).We report comparable performance to recent work in the field, even though ouroverall model is simpler. We also show that the training time choice of how wecan generate our negative samples has a significant impact on performance, and can be used to specialize the bi-directional system in one particular task.

Are LLMs Better than Reported? Detecting Label Errors and Mitigating Their Effect on Model Performance

NLP benchmarks rely on standardized datasets for training and evaluating models and are crucial for advancing the field. Traditionally, expert annotations ensure high-quality labels; however, the cost of expert annotation does not scale well with the growing demand for larger datasets required by modern models. While crowd-sourcing provides a more scalable solution, it often comes at the expense of annotation precision and consistency. Recent advancements in large language models (LLMs) offer new opportunities to enhance the annotation process, particularly for detecting label errors in existing datasets. In this work, we consider the recent approach of LLM-as-a-judge, leveraging an ensemble of LLMs to flag potentially mislabeled examples. Through a case study of four datasets from the TRUE benchmark, covering different tasks and domains, we empirically analyze the labeling quality of existing datasets, and compare expert, crowd-sourced, and our LLM-based annotations in terms of agreement, label quality, and efficiency, demonstrating the strengths and limitations of each annotation method. Our findings reveal a substantial number of label errors, which, when corrected, induce a significant upward shift in reported model performance. This suggests that many of the LLMs so-called mistakes are due to label errors rather than genuine model failures. Additionally, we discuss the implications of mislabeled data and propose methods to mitigate them in training to improve model performance.

Pre-trained Language Models as Re-Annotators

Annotation noise is widespread in datasets, but manually revising a flawed corpus is time-consuming and error-prone. Hence, given the prior knowledge in Pre-trained Language Models and the expected uniformity across all annotations, we attempt to reduce annotation noise in the corpus through two tasks automatically: (1) Annotation Inconsistency Detection that indicates the credibility of annotations, and (2) Annotation Error Correction that rectifies the abnormal annotations. We investigate how to acquire semantic sensitive annotation representations from Pre-trained Language Models, expecting to embed the examples with identical annotations to the mutually adjacent positions even without fine-tuning. We proposed a novel credibility score to reveal the likelihood of annotation inconsistencies based on the neighbouring consistency. Then, we fine-tune the Pre-trained Language Models based classifier with cross-validation for annotation correction. The annotation corrector is further elaborated with two approaches: (1) soft labelling by Kernel Density Estimation and (2) a novel distant-peer contrastive loss. We study the re-annotation in relation extraction and create a new manually revised dataset, Re-DocRED, for evaluating document-level re-annotation. The proposed credibility scores show promising agreement with human revisions, achieving a Binary F1 of 93.4 and 72.5 in detecting inconsistencies on TACRED and DocRED respectively. Moreover, the neighbour-aware classifiers based on distant-peer contrastive learning and uncertain labels achieve Macro F1 up to 66.2 and 57.8 in correcting annotations on TACRED and DocRED respectively. These improvements are not merely theoretical: Rather, automatically denoised training sets demonstrate up to 3.6% performance improvement for state-of-the-art relation extraction models.

Balancing the Budget: Understanding Trade-offs Between Supervised and Preference-Based Finetuning

Post-training of Large Language Models often involves a pipeline of Supervised Finetuning (SFT) followed by Preference Finetuning (PFT) using methods like Direct Preference Optimization. Both stages require annotated data that are very different in structure and costs. We study how to optimally allocate a fixed training data budget between the two stages, through extensive experiments spanning four diverse tasks, multiple model sizes and various data annotation costs. Our findings reveal that just SFT on the base model dominates performance in low-data regimes (<1,000 annotated examples). With larger data-budgets, we observe that a combination of SFT and PFT, often with increasing portions allocated towards preference data yields optimal performance. However, completely eliminating SFT and running PFT directly on the base model yields suboptimal performance, described as the cold start problem on tasks like mathematics. We observe that this is due to the distribution shift arising from using DPO directly on the base model to elicit step-by-step reasoning. This limitation can be effectively addressed by allocating even a small portion (<10%) of the budget to SFT first, resulting in performance improvements of 15-20% on analytical benchmarks like GSM8k. These results provide actionable insights for researchers and practitioners optimizing model development under budget constraints, where high-quality data curation often represents a significant portion of the total costs of model development.

WebCanvas: Benchmarking Web Agents in Online Environments

For web agents to be practically useful, they must adapt to the continuously evolving web environment characterized by frequent updates to user interfaces and content. However, most existing benchmarks only capture the static aspects of the web. To bridge this gap, we introduce WebCanvas, an innovative online evaluation framework for web agents that effectively addresses the dynamic nature of web interactions. WebCanvas contains three main components to facilitate realistic assessments: (1) A novel evaluation metric which reliably capture critical intermediate actions or states necessary for task completions while disregarding noise caused by insignificant events or changed web-elements. (2) A benchmark dataset called Mind2Web-Live, a refined version of original Mind2Web static dataset containing 542 tasks with 2439 intermediate evaluation states; (3) Lightweight and generalizable annotation tools and testing pipelines that enables the community to collect and maintain the high-quality, up-to-date dataset. Building on WebCanvas, we open-source an agent framework with extensible modules for reasoning, providing a foundation for the community to conduct online inference and evaluations. Our best-performing agent achieves a task success rate of 23.1% and a task completion rate of 48.8% on the Mind2Web-Live test set. Additionally, we analyze the performance discrepancies across various websites, domains, and experimental environments. We encourage the community to contribute further insights on online agent evaluation, thereby advancing this field of research.

VISTA3D: A Unified Segmentation Foundation Model For 3D Medical Imaging

Foundation models for interactive segmentation in 2D natural images and videos have sparked significant interest in building 3D foundation models for medical imaging. However, the domain gaps and clinical use cases for 3D medical imaging require a dedicated model that diverges from existing 2D solutions. Specifically, such foundation models should support a full workflow that can actually reduce human effort. Treating 3D medical images as sequences of 2D slices and reusing interactive 2D foundation models seems straightforward, but 2D annotation is too time-consuming for 3D tasks. Moreover, for large cohort analysis, it's the highly accurate automatic segmentation models that reduce the most human effort. However, these models lack support for interactive corrections and lack zero-shot ability for novel structures, which is a key feature of "foundation". While reusing pre-trained 2D backbones in 3D enhances zero-shot potential, their performance on complex 3D structures still lags behind leading 3D models. To address these issues, we present VISTA3D, Versatile Imaging SegmenTation and Annotation model, that targets to solve all these challenges and requirements with one unified foundation model. VISTA3D is built on top of the well-established 3D segmentation pipeline, and it is the first model to achieve state-of-the-art performance in both 3D automatic (supporting 127 classes) and 3D interactive segmentation, even when compared with top 3D expert models on large and diverse benchmarks. Additionally, VISTA3D's 3D interactive design allows efficient human correction, and a novel 3D supervoxel method that distills 2D pretrained backbones grants VISTA3D top 3D zero-shot performance. We believe the model, recipe, and insights represent a promising step towards a clinically useful 3D foundation model. Code and weights are publicly available at https://github.com/Project-MONAI/VISTA.

ODM: A Text-Image Further Alignment Pre-training Approach for Scene Text Detection and Spotting

In recent years, text-image joint pre-training techniques have shown promising results in various tasks. However, in Optical Character Recognition (OCR) tasks, aligning text instances with their corresponding text regions in images poses a challenge, as it requires effective alignment between text and OCR-Text (referring to the text in images as OCR-Text to distinguish from the text in natural language) rather than a holistic understanding of the overall image content. In this paper, we propose a new pre-training method called OCR-Text Destylization Modeling (ODM) that transfers diverse styles of text found in images to a uniform style based on the text prompt. With ODM, we achieve better alignment between text and OCR-Text and enable pre-trained models to adapt to the complex and diverse styles of scene text detection and spotting tasks. Additionally, we have designed a new labeling generation method specifically for ODM and combined it with our proposed Text-Controller module to address the challenge of annotation costs in OCR tasks, allowing a larger amount of unlabeled data to participate in pre-training. Extensive experiments on multiple public datasets demonstrate that our method significantly improves performance and outperforms current pre-training methods in scene text detection and spotting tasks. Code is available at {https://github.com/PriNing/ODM}.

OmniEval: An Omnidirectional and Automatic RAG Evaluation Benchmark in Financial Domain

As a typical and practical application of Large Language Models (LLMs), Retrieval-Augmented Generation (RAG) techniques have gained extensive attention, particularly in vertical domains where LLMs may lack domain-specific knowledge. In this paper, we introduce an omnidirectional and automatic RAG benchmark, OmniEval, in the financial domain. Our benchmark is characterized by its multi-dimensional evaluation framework, including (1) a matrix-based RAG scenario evaluation system that categorizes queries into five task classes and 16 financial topics, leading to a structured assessment of diverse query scenarios; (2) a multi-dimensional evaluation data generation approach, which combines GPT-4-based automatic generation and human annotation, achieving an 87.47\% acceptance ratio in human evaluations on generated instances; (3) a multi-stage evaluation system that evaluates both retrieval and generation performance, result in a comprehensive evaluation on the RAG pipeline; and (4) robust evaluation metrics derived from rule-based and LLM-based ones, enhancing the reliability of assessments through manual annotations and supervised fine-tuning of an LLM evaluator. Our experiments demonstrate the comprehensiveness of OmniEval, which includes extensive test datasets and highlights the performance variations of RAG systems across diverse topics and tasks, revealing significant opportunities for RAG models to improve their capabilities in vertical domains. We open source the code of our benchmark in https://github.com/RUC-NLPIR/OmniEval{https://github.com/RUC-NLPIR/OmniEval}.

Ragnarök: A Reusable RAG Framework and Baselines for TREC 2024 Retrieval-Augmented Generation Track

Did you try out the new Bing Search? Or maybe you fiddled around with Google AI~Overviews? These might sound familiar because the modern-day search stack has recently evolved to include retrieval-augmented generation (RAG) systems. They allow searching and incorporating real-time data into large language models (LLMs) to provide a well-informed, attributed, concise summary in contrast to the traditional search paradigm that relies on displaying a ranked list of documents. Therefore, given these recent advancements, it is crucial to have an arena to build, test, visualize, and systematically evaluate RAG-based search systems. With this in mind, we propose the TREC 2024 RAG Track to foster innovation in evaluating RAG systems. In our work, we lay out the steps we've made towards making this track a reality -- we describe the details of our reusable framework, Ragnar\"ok, explain the curation of the new MS MARCO V2.1 collection choice, release the development topics for the track, and standardize the I/O definitions which assist the end user. Next, using Ragnar\"ok, we identify and provide key industrial baselines such as OpenAI's GPT-4o or Cohere's Command R+. Further, we introduce a web-based user interface for an interactive arena allowing benchmarking pairwise RAG systems by crowdsourcing. We open-source our Ragnar\"ok framework and baselines to achieve a unified standard for future RAG systems.

Autoregressive Search Engines: Generating Substrings as Document Identifiers

Knowledge-intensive language tasks require NLP systems to both provide the correct answer and retrieve supporting evidence for it in a given corpus. Autoregressive language models are emerging as the de-facto standard for generating answers, with newer and more powerful systems emerging at an astonishing pace. In this paper we argue that all this (and future) progress can be directly applied to the retrieval problem with minimal intervention to the models' architecture. Previous work has explored ways to partition the search space into hierarchical structures and retrieve documents by autoregressively generating their unique identifier. In this work we propose an alternative that doesn't force any structure in the search space: using all ngrams in a passage as its possible identifiers. This setup allows us to use an autoregressive model to generate and score distinctive ngrams, that are then mapped to full passages through an efficient data structure. Empirically, we show this not only outperforms prior autoregressive approaches but also leads to an average improvement of at least 10 points over more established retrieval solutions for passage-level retrieval on the KILT benchmark, establishing new state-of-the-art downstream performance on some datasets, while using a considerably lighter memory footprint than competing systems. Code and pre-trained models at https://github.com/facebookresearch/SEAL.

A Unified Generative Retriever for Knowledge-Intensive Language Tasks via Prompt Learning

Knowledge-intensive language tasks (KILTs) benefit from retrieving high-quality relevant contexts from large external knowledge corpora. Learning task-specific retrievers that return relevant contexts at an appropriate level of semantic granularity, such as a document retriever, passage retriever, sentence retriever, and entity retriever, may help to achieve better performance on the end-to-end task. But a task-specific retriever usually has poor generalization ability to new domains and tasks, and it may be costly to deploy a variety of specialised retrievers in practice. We propose a unified generative retriever (UGR) that combines task-specific effectiveness with robust performance over different retrieval tasks in KILTs. To achieve this goal, we make two major contributions: (i) To unify different retrieval tasks into a single generative form, we introduce an n-gram-based identifier for relevant contexts at different levels of granularity in KILTs. And (ii) to address different retrieval tasks with a single model, we employ a prompt learning strategy and investigate three methods to design prompt tokens for each task. In this way, the proposed UGR model can not only share common knowledge across tasks for better generalization, but also perform different retrieval tasks effectively by distinguishing task-specific characteristics. We train UGR on a heterogeneous set of retrieval corpora with well-designed prompts in a supervised and multi-task fashion. Experimental results on the KILT benchmark demonstrate the effectiveness of UGR on in-domain datasets, out-of-domain datasets, and unseen tasks.

TACAM: Topic And Context Aware Argument Mining

In this work we address the problem of argument search. The purpose of argument search is the distillation of pro and contra arguments for requested topics from large text corpora. In previous works, the usual approach is to use a standard search engine to extract text parts which are relevant to the given topic and subsequently use an argument recognition algorithm to select arguments from them. The main challenge in the argument recognition task, which is also known as argument mining, is that often sentences containing arguments are structurally similar to purely informative sentences without any stance about the topic. In fact, they only differ semantically. Most approaches use topic or search term information only for the first search step and therefore assume that arguments can be classified independently of a topic. We argue that topic information is crucial for argument mining, since the topic defines the semantic context of an argument. Precisely, we propose different models for the classification of arguments, which take information about a topic of an argument into account. Moreover, to enrich the context of a topic and to let models understand the context of the potential argument better, we integrate information from different external sources such as Knowledge Graphs or pre-trained NLP models. Our evaluation shows that considering topic information, especially in connection with external information, provides a significant performance boost for the argument mining task.

CodeSearchNet Challenge: Evaluating the State of Semantic Code Search

Semantic code search is the task of retrieving relevant code given a natural language query. While related to other information retrieval tasks, it requires bridging the gap between the language used in code (often abbreviated and highly technical) and natural language more suitable to describe vague concepts and ideas. To enable evaluation of progress on code search, we are releasing the CodeSearchNet Corpus and are presenting the CodeSearchNet Challenge, which consists of 99 natural language queries with about 4k expert relevance annotations of likely results from CodeSearchNet Corpus. The corpus contains about 6 million functions from open-source code spanning six programming languages (Go, Java, JavaScript, PHP, Python, and Ruby). The CodeSearchNet Corpus also contains automatically generated query-like natural language for 2 million functions, obtained from mechanically scraping and preprocessing associated function documentation. In this article, we describe the methodology used to obtain the corpus and expert labels, as well as a number of simple baseline solutions for the task. We hope that CodeSearchNet Challenge encourages researchers and practitioners to study this interesting task further and will host a competition and leaderboard to track the progress on the challenge. We are also keen on extending CodeSearchNet Challenge to more queries and programming languages in the future.

Using clarification questions to improve software developers' Web search

Context: Recent research indicates that Web queries written by software developers are not very successful in retrieving relevant results, performing measurably worse compared to general purpose Web queries. Most approaches up to this point have addressed this problem with software engineering-specific automated query reformulation techniques, which work without developer involvement but are limited by the content of the original query. In other words, these techniques automatically improve the existing query but can not contribute new, previously unmentioned, concepts. Objective: In this paper, we propose a technique to guide software developers in manually improving their own Web search queries. We examine a conversational approach that follows unsuccessful queries with a clarification question aimed at eliciting additional query terms, thus providing to the developer a clear dimension along which the query could be improved. Methods: We describe a set of clarification questions derived from a corpus of software developer queries and a neural approach to recommending them for a newly issued query. Results: Our evaluation indicates that the recommendation technique is accurate, predicting a valid clarification question 80% of the time and outperforms simple baselines, as well as, state-of-the-art Learning To Rank (LTR) baselines. Conclusion: As shown in the experimental results, the described approach is capable at recommending appropriate clarification questions to software developers and considered useful by a sample of developers ranging from novices to experienced professionals.

NERetrieve: Dataset for Next Generation Named Entity Recognition and Retrieval

Recognizing entities in texts is a central need in many information-seeking scenarios, and indeed, Named Entity Recognition (NER) is arguably one of the most successful examples of a widely adopted NLP task and corresponding NLP technology. Recent advances in large language models (LLMs) appear to provide effective solutions (also) for NER tasks that were traditionally handled with dedicated models, often matching or surpassing the abilities of the dedicated models. Should NER be considered a solved problem? We argue to the contrary: the capabilities provided by LLMs are not the end of NER research, but rather an exciting beginning. They allow taking NER to the next level, tackling increasingly more useful, and increasingly more challenging, variants. We present three variants of the NER task, together with a dataset to support them. The first is a move towards more fine-grained -- and intersectional -- entity types. The second is a move towards zero-shot recognition and extraction of these fine-grained types based on entity-type labels. The third, and most challenging, is the move from the recognition setup to a novel retrieval setup, where the query is a zero-shot entity type, and the expected result is all the sentences from a large, pre-indexed corpus that contain entities of these types, and their corresponding spans. We show that all of these are far from being solved. We provide a large, silver-annotated corpus of 4 million paragraphs covering 500 entity types, to facilitate research towards all of these three goals.

Extracting Mathematical Concepts with Large Language Models

We extract mathematical concepts from mathematical text using generative large language models (LLMs) like ChatGPT, contributing to the field of automatic term extraction (ATE) and mathematical text processing, and also to the study of LLMs themselves. Our work builds on that of others in that we aim for automatic extraction of terms (keywords) in one mathematical field, category theory, using as a corpus the 755 abstracts from a snapshot of the online journal "Theory and Applications of Categories", circa 2020. Where our study diverges from previous work is in (1) providing a more thorough analysis of what makes mathematical term extraction a difficult problem to begin with; (2) paying close attention to inter-annotator disagreements; (3) providing a set of guidelines which both human and machine annotators could use to standardize the extraction process; (4) introducing a new annotation tool to help humans with ATE, applicable to any mathematical field and even beyond mathematics; (5) using prompts to ChatGPT as part of the extraction process, and proposing best practices for such prompts; and (6) raising the question of whether ChatGPT could be used as an annotator on the same level as human experts. Our overall findings are that the matter of mathematical ATE is an interesting field which can benefit from participation by LLMs, but LLMs themselves cannot at this time surpass human performance on it.

Exploring Non-Verbal Predicates in Semantic Role Labeling: Challenges and Opportunities

Although we have witnessed impressive progress in Semantic Role Labeling (SRL), most of the research in the area is carried out assuming that the majority of predicates are verbs. Conversely, predicates can also be expressed using other parts of speech, e.g., nouns and adjectives. However, non-verbal predicates appear in the benchmarks we commonly use to measure progress in SRL less frequently than in some real-world settings -- newspaper headlines, dialogues, and tweets, among others. In this paper, we put forward a new PropBank dataset which boasts wide coverage of multiple predicate types. Thanks to it, we demonstrate empirically that standard benchmarks do not provide an accurate picture of the current situation in SRL and that state-of-the-art systems are still incapable of transferring knowledge across different predicate types. Having observed these issues, we also present a novel, manually-annotated challenge set designed to give equal importance to verbal, nominal, and adjectival predicate-argument structures. We use such dataset to investigate whether we can leverage different linguistic resources to promote knowledge transfer. In conclusion, we claim that SRL is far from "solved", and its integration with other semantic tasks might enable significant improvements in the future, especially for the long tail of non-verbal predicates, thereby facilitating further research on SRL for non-verbal predicates.

A Biomedical Entity Extraction Pipeline for Oncology Health Records in Portuguese

Textual health records of cancer patients are usually protracted and highly unstructured, making it very time-consuming for health professionals to get a complete overview of the patient's therapeutic course. As such limitations can lead to suboptimal and/or inefficient treatment procedures, healthcare providers would greatly benefit from a system that effectively summarizes the information of those records. With the advent of deep neural models, this objective has been partially attained for English clinical texts, however, the research community still lacks an effective solution for languages with limited resources. In this paper, we present the approach we developed to extract procedures, drugs, and diseases from oncology health records written in European Portuguese. This project was conducted in collaboration with the Portuguese Institute for Oncology which, besides holding over 10 years of duly protected medical records, also provided oncologist expertise throughout the development of the project. Since there is no annotated corpus for biomedical entity extraction in Portuguese, we also present the strategy we followed in annotating the corpus for the development of the models. The final models, which combined a neural architecture with entity linking, achieved F_1 scores of 88.6, 95.0, and 55.8 per cent in the mention extraction of procedures, drugs, and diseases, respectively.

Resources for Brewing BEIR: Reproducible Reference Models and an Official Leaderboard

BEIR is a benchmark dataset for zero-shot evaluation of information retrieval models across 18 different domain/task combinations. In recent years, we have witnessed the growing popularity of a representation learning approach to building retrieval models, typically using pretrained transformers in a supervised setting. This naturally begs the question: How effective are these models when presented with queries and documents that differ from the training data? Examples include searching in different domains (e.g., medical or legal text) and with different types of queries (e.g., keywords vs. well-formed questions). While BEIR was designed to answer these questions, our work addresses two shortcomings that prevent the benchmark from achieving its full potential: First, the sophistication of modern neural methods and the complexity of current software infrastructure create barriers to entry for newcomers. To this end, we provide reproducible reference implementations that cover the two main classes of approaches: learned dense and sparse models. Second, there does not exist a single authoritative nexus for reporting the effectiveness of different models on BEIR, which has led to difficulty in comparing different methods. To remedy this, we present an official self-service BEIR leaderboard that provides fair and consistent comparisons of retrieval models. By addressing both shortcomings, our work facilitates future explorations in a range of interesting research questions that BEIR enables.

A Comprehensive Overview of Large Language Models

Large Language Models (LLMs) have recently demonstrated remarkable capabilities in natural language processing tasks and beyond. This success of LLMs has led to a large influx of research contributions in this direction. These works encompass diverse topics such as architectural innovations of the underlying neural networks, context length improvements, model alignment, training datasets, benchmarking, efficiency and more. With the rapid development of techniques and regular breakthroughs in LLM research, it has become considerably challenging to perceive the bigger picture of the advances in this direction. Considering the rapidly emerging plethora of literature on LLMs, it is imperative that the research community is able to benefit from a concise yet comprehensive overview of the recent developments in this field. This article provides that overview to the research community. It not only focuses on a systematic treatment of the existing literature on a broad range of LLM related concept, but also pays special attention to providing comprehensive summaries with extensive details about the individual existing models, datasets and major insights. We also pay heed to aligning our overview with the emerging outlook of this research direction by accounting for the other recently materializing reviews of the broader research direction of LLMs. Our self-contained comprehensive overview of LLMs discusses relevant background concepts along with covering the advanced topics at the frontier of this research direction. This review article is intended to not only provide a systematic survey, but also a quick comprehensive reference for the researchers and practitioners to draw insights from extensive informative summaries of the existing works to advance the LLM research direction.

Challenges and Considerations in Annotating Legal Data: A Comprehensive Overview

The process of annotating data within the legal sector is filled with distinct challenges that differ from other fields, primarily due to the inherent complexities of legal language and documentation. The initial task usually involves selecting an appropriate raw dataset that captures the intricate aspects of legal texts. Following this, extracting text becomes a complicated task, as legal documents often have complex structures, footnotes, references, and unique terminology. The importance of data cleaning is magnified in this context, ensuring that redundant information is eliminated while maintaining crucial legal details and context. Creating comprehensive yet straightforward annotation guidelines is imperative, as these guidelines serve as the road map for maintaining uniformity and addressing the subtle nuances of legal terminology. Another critical aspect is the involvement of legal professionals in the annotation process. Their expertise is valuable in ensuring that the data not only remains contextually accurate but also adheres to prevailing legal standards and interpretations. This paper provides an expanded view of these challenges and aims to offer a foundational understanding and guidance for researchers and professionals engaged in legal data annotation projects. In addition, we provide links to our created and fine-tuned datasets and language models. These resources are outcomes of our discussed projects and solutions to challenges faced while working on them.

The Newspaper Navigator Dataset: Extracting And Analyzing Visual Content from 16 Million Historic Newspaper Pages in Chronicling America

Chronicling America is a product of the National Digital Newspaper Program, a partnership between the Library of Congress and the National Endowment for the Humanities to digitize historic newspapers. Over 16 million pages of historic American newspapers have been digitized for Chronicling America to date, complete with high-resolution images and machine-readable METS/ALTO OCR. Of considerable interest to Chronicling America users is a semantified corpus, complete with extracted visual content and headlines. To accomplish this, we introduce a visual content recognition model trained on bounding box annotations of photographs, illustrations, maps, comics, and editorial cartoons collected as part of the Library of Congress's Beyond Words crowdsourcing initiative and augmented with additional annotations including those of headlines and advertisements. We describe our pipeline that utilizes this deep learning model to extract 7 classes of visual content: headlines, photographs, illustrations, maps, comics, editorial cartoons, and advertisements, complete with textual content such as captions derived from the METS/ALTO OCR, as well as image embeddings for fast image similarity querying. We report the results of running the pipeline on 16.3 million pages from the Chronicling America corpus and describe the resulting Newspaper Navigator dataset, the largest dataset of extracted visual content from historic newspapers ever produced. The Newspaper Navigator dataset, finetuned visual content recognition model, and all source code are placed in the public domain for unrestricted re-use.