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Large Language Models (LLMs) are increasingly used in empirical software engineering (ESE) to automate or assist annotation tasks such as labeling commits, issues, and qualitative artifacts. Yet the reliability and reproducibility of such…
Many ontologies have been developed in biology and these ontologies increasingly contain large volumes of formalized knowledge commonly expressed in the Web Ontology Language (OWL). Computational access to the knowledge contained within…
Current-generation Large Language Models (LLMs) have stirred enormous interest in recent months, yielding great potential for accessibility and automation, while simultaneously posing significant challenges and risk of misuse. To facilitate…
The ability to learn and refine behavior after deployment has become ever more important for robots as we design them to operate in unstructured environments like households. In this work, we design a new learning system based on large…
Language agents show potential in being capable of utilizing natural language for varied and intricate tasks in diverse environments, particularly when built upon large language models (LLMs). Current language agent frameworks aim to…
The rapid advancement of Large Language Models (LLMs) and their integration into autonomous agent systems has created unprecedented opportunities for document analysis, decision support, and knowledge retrieval. However, the complexity of…
The recent development of large language models (LLMs) with multi-billion parameters, coupled with the creation of user-friendly application programming interfaces (APIs), has paved the way for automatically generating and executing code in…
In this paper, we introduce OWLAPY, a comprehensive Python framework for OWL ontology engineering. OWLAPY streamlines the creation, modification, and serialization of OWL 2 ontologies. It uniquely integrates native Python-based reasoners…
MARF is an open-source research platform and a collection of voice/sound/speech/text and natural language processing (NLP) algorithms written in Java and arranged into a modular and extensible framework facilitating addition of new…
Large language models (LLMs) and vision-language models (VLMs) have the potential to transform biological research by enabling autonomous experimentation. Yet, their application remains constrained by rigid protocol design, limited…
The Ontology Lookup Service (OLS) is an open source search engine for ontologies which is used extensively in the bioinformatics and chemistry communities to annotate biological and biomedical data with ontology terms. Recently there has…
Large Language Models (LLMs) show promise for automated code optimization but struggle without performance context. This work introduces Opal, a modular framework that connects performance analytics insights with the vast body of published…
Large language models (LLMs) are a class of artificial intelligence models based on deep learning, which have great performance in various tasks, especially in natural language processing (NLP). Large language models typically consist of…
In the medical domain, numerous scenarios necessitate the long-form generation ability of large language models (LLMs). Specifically, when addressing patients' questions, it is essential that the model's response conveys factual claims,…
With the exponential increase in online scientific literature, identifying reliable domain-specific data has become increasingly important but also very challenging. Manual data collection and filtering for domain-specific scientific…
Large Language Models (LLMs) are increasingly applied to forecasting. To evaluate this capability while mitigating pre-training data contamination, several living benchmarks have been proposed. However, existing benchmarks either lack the…
With the rapid development of IT operations, it has become increasingly crucial to efficiently manage and analyze large volumes of data for practical applications. The techniques of Natural Language Processing (NLP) have shown remarkable…
OWLOOP is an Application Programming Interface (API) for using the Ontology Web Language (OWL) by the means of Object-Oriented Programming (OOP). It is common to design software architectures using the OOP paradigm for increasing their…
Artificial intelligence (AI) techniques are widely applied in the life sciences. However, applying innovative AI techniques to understand and deconvolute biological complexity is hindered by the learning curve for life science scientists to…
As generative Artificial Intelligence (AI) technologies evolve, they offer unprecedented potential to automate and enhance various tasks, including coding. Natural Language-Oriented Programming (NLOP), a vision introduced in this paper,…