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Modern information and communication systems have become increasingly challenging to manage. The ubiquitous system logs contain plentiful information and are thus widely exploited as an alternative source for system management. As log files…
The notion of complex systems is common to many domains, from Biology to Economy, Computer Science, Physics, etc. Often, these systems are made of sets of entities moving in an evolving environment. One of their major characteristics is the…
The R package MixMashNet provides an integrated framework for estimating and analyzing single and multilayer networks using Mixed Graphical Models (MGMs), accommodating continuous, count, and categorical variables. In the multilayer…
Python applications depend on third-party native libraries that may be vendored within package distributions or installed on the host system. When vulnerabilities are discovered in these native libraries, determining which Python packages…
Academic Clinical Trial Units frequently face fragmented statistical workflows, leading to duplicated effort, limited collaboration, and inconsistent analytical practices. To address these challenges within an oncology Clinical Trial Unit,…
Modern software systems are developed in diverse programming languages and often harbor critical vulnerabilities that attackers can exploit to compromise security. These vulnerabilities have been actively targeted in real-world attacks,…
Complex networks are an important paradigm of modern complex systems sciences which allows quantitatively assessing the structural properties of systems composed of different interacting entities. During the last years, intensive efforts…
1.) Spatio-temporal datasets that are difficult to analyze are common in ecological surveys. There are software packages available to analyze these datasets, but many of them require advanced coding skills. There is a growing need for easy…
Recent advancements in complex network analysis are encouraging and may provide useful insights when applied in software engineering domain, revealing properties and structures that cannot be captured by traditional metrics. In this paper,…
Due to their increasing complexity, today's software systems are frequently built by leveraging reusable code in the form of libraries and packages. Software ecosystems (e.g., npm) are the primary enablers of this code reuse, providing…
Complex networks are a powerful modeling tool, allowing the study of countless real-world systems. They have been used in very different domains such as computer science, biology, sociology, management, etc. Authors have been trying to…
Open-source software (OSS) has become increasingly more popular across different domains. However, this rapid development and widespread adoption come with a security cost. The growing complexity and openness of OSS ecosystems have led to…
Logical models offer a simple but powerful means to understand the complex dynamics of biochemical regulation, without the need to estimate kinetic parameters. However, even simple automata components can lead to collective dynamics that…
Understanding complex interactions within microbiomes is essential for exploring their roles in health and disease. However, constructing reliable microbiome networks often poses a challenge due to variations in the output of different…
This study introduces a novel methodology for mapping scientific communities at scale, addressing challenges associated with network analysis in large bibliometric datasets. By leveraging enriched publication metadata from the French…
Software libraries are the elementary building blocks of open source software ecosystems, extending the capabilities of programming languages beyond their standard libraries. Although ecosystem health is often quantified using data on…
R packages are the fundamental units of reproducible code in R, providing a mechanism for distributing user-developed code, documentation, and data. Docker is a virtualization technology that allows applications and their dependencies to be…
The fitting or parameter estimation of complex ecological models is a challenging optimisation task, with a notable lack of tools for fitting complex, long runtime or stochastic models. calibrar is an R package that is dedicated to the…
We introduce the \texttt{pyunicorn} (Pythonic unified complex network and recurrence analysis toolbox) open source software package for applying and combining modern methods of data analysis and modeling from complex network theory and…
The reproducibility of scientific research has become a point of critical concern. We argue that openness and transparency are critical for reproducibility, and we outline an ecosystem for open and transparent science that has emerged…