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Background: Named Entity Recognition (NER) and Normalisation (NEN) are core components of any text-mining system for biomedical texts. In a traditional concept-recognition pipeline, these tasks are combined in a serial way, which is…

Computation and Language · Computer Science 2020-08-11 Lenz Furrer , Joseph Cornelius , Fabio Rinaldi

Graph neural networks (GNNs) are powerful tools on graph data. However, their predictions are mis-calibrated and lack interpretability, limiting their adoption in critical applications. To address this issue, we propose a new…

Machine Learning · Computer Science 2025-08-26 Lingkai Kong , Haotian Sun , Yuchen Zhuang , Haorui Wang , Wenhao Mu , Chao Zhang

We present a repository decomposition system that converts large software repositories into a vectorized knowledge graph which mirrors project architectural and semantic structure, capturing semantic relationships and allowing a significant…

Generative models of graph structure have applications in biology and social sciences. The state of the art is GraphRNN, which decomposes the graph generation process into a series of sequential steps. While effective for modest sizes, it…

Machine Learning · Computer Science 2019-10-18 Tony Duan , Juho Lee

We develop the first theory of control-flow graphs from first principles, and use it to create an algorithm for automatically synthesizing many variants of control-flow graph generators from a language's operational semantics. Our approach…

Programming Languages · Computer Science 2022-07-25 James Koppel , Jackson Kearl , Armando Solar-Lezama

Graph transformation formalisms have proven to be suitable tools for the modelling of chemical reactions. They are well established in theoretical studies and increasingly also in practical applications in chemistry. The latter is made…

Discrete Mathematics · Computer Science 2022-08-29 Jakob L. Andersen , Rolf Fagerberg , Juri Kolčák , Christophe V. F. P. Laurent , Daniel Merkle , Nikolai Nøjgaard

Labeled property graphs often contain rich textual attributes that can enhance analytical tasks when properly leveraged. This work explores the use of pretrained text embedding models to enable efficient semantic analysis in such graphs. By…

Computation and Language · Computer Science 2026-02-09 Michal Podstawski

We study the problem of generating source code in a strongly typed, Java-like programming language, given a label (for example a set of API calls or types) carrying a small amount of information about the code that is desired. The generated…

Programming Languages · Computer Science 2018-04-16 Vijayaraghavan Murali , Letao Qi , Swarat Chaudhuri , Chris Jermaine

Graphs can be used to represent and reason about systems and a variety of metrics have been devised to quantify their global characteristics. However, little is currently known about how to construct a graph or improve an existing one given…

Machine Learning · Computer Science 2021-10-28 Victor-Alexandru Darvariu , Stephen Hailes , Mirco Musolesi

The multidimensional, heterogeneous, and temporal nature of speech databases raises interesting challenges for representation and query. Recently, annotation graphs have been proposed as a general-purpose representational framework for…

Computation and Language · Computer Science 2007-05-23 Steven Bird , Peter Buneman , Wang-Chiew Tan

Graphs are nowadays ubiquitous in the fields of signal processing and machine learning. As a tool used to express relationships between objects, graphs can be deployed to various ends: I) clustering of vertices, II) semi-supervised…

Machine Learning · Computer Science 2020-07-17 Carlos Lassance , Vincent Gripon , Gonzalo Mateos

The ramification method in Implicit Computational Complexity has been associated with functional programming, but adapting it to generic imperative programming is highly desirable, given the wider algorithmic applicability of imperative…

Logic in Computer Science · Computer Science 2020-02-20 Daniel Leivant

Node graph systems are used ubiquitously for material design in computer graphics. They allow the use of visual programming to achieve desired effects without writing code. As high-level design tools they provide convenience and…

Graphics · Computer Science 2023-04-27 Yiwei Hu , Paul Guerrero , Miloš Hašan , Holly Rushmeier , Valentin Deschaintre

This work presents a novel back-end framework for speaker verification using graph attention networks. Segment-wise speaker embeddings extracted from multiple crops within an utterance are interpreted as node representations of a graph. The…

Audio and Speech Processing · Electrical Eng. & Systems 2021-02-09 Jee-weon Jung , Hee-Soo Heo , Ha-Jin Yu , Joon Son Chung

Structural equation modeling (SEM) is a popular tool in the social and behavioural sciences, where it is being applied to ever more complex data types. The high-dimensional data produced by modern sensors, brain images, or (epi)genetic…

Methodology · Statistics 2019-10-11 Erik-Jan van Kesteren , Daniel L. Oberski

We investigate how combinations of Large Language Models (LLMs) and symbolic analyses can be used to synthesise specifications of C programs. The LLM prompts are augmented with outputs from two formal methods tools in the Frama-C ecosystem,…

Software Engineering · Computer Science 2024-09-19 George Granberry , Wolfgang Ahrendt , Moa Johansson

Program semantics learning is the core and fundamental for various code intelligent tasks e.g., vulnerability detection, clone detection. A considerable amount of existing works propose diverse approaches to learn the program semantics for…

Software Engineering · Computer Science 2022-03-23 Jing Kai Siow , Shangqing Liu , Xiaofei Xie , Guozhu Meng , Yang Liu

We develop a shape analysis for reasoning about relational properties of data structures. Both the concrete and the abstract domain are represented by hypergraphs. The analysis is parameterized by user-supplied indexed graph grammars to…

Programming Languages · Computer Science 2018-04-20 Hannah Arndt , Christina Jansen , Christoph Matheja , Thomas Noll

Answer set programming (ASP) is a popular nonmonotonic-logic based paradigm for knowledge representation and solving combinatorial problems. Computing the answer set of an ASP program is NP-hard in general, and researchers have been…

Artificial Intelligence · Computer Science 2021-04-06 Fang Li , Huaduo Wang , Gopal Gupta

Chart annotations enhance visualization accessibility but suffer from fragmented, non-standardized representations that limit cross-platform reuse. We propose ChartMark, a structured grammar that separates annotation semantics from…

Computation and Language · Computer Science 2025-07-30 Yiyu Chen , Yifan Wu , Shuyu Shen , Yupeng Xie , Leixian Shen , Hui Xiong , Yuyu Luo