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We present PyFCG, an open source software library that ports Fluid Construction Grammar (FCG) to the Python programming language. PyFCG enables its users to seamlessly integrate FCG functionality into Python programs, and to use FCG in…
Machine learning solutions are very popular in the field of chemoinformatics, where they have numerous applications, such as novel drug discovery or molecular property prediction. Molecular fingerprints are algorithms commonly used for…
Background: Using artificial intelligence (AI) techniques for computational medical image analysis has shown promising results. However, colored images are often not readily available for AI analysis because of different coloring thresholds…
QuTiP, the Quantum Toolbox in Python, has been at the forefront of open-source quantum software for the past 13 years. It is used as a research, teaching, and industrial tool, and has been downloaded millions of times by users around the…
We introduce Docling, an easy-to-use, self-contained, MIT-licensed, open-source toolkit for document conversion, that can parse several types of popular document formats into a unified, richly structured representation. It is powered by…
Medical image analysis plays a key role in precision medicine as it allows the clinicians to identify anatomical abnormalities and it is routinely used in clinical assessment. Data curation and pre-processing of medical images are critical…
Spectropolarimetry, the observation of polarization and intensity as a function of wavelength, is a powerful tool in stellar astrophysics. It is particularly useful for characterizing stars and circumstellar material, and for tracing the…
The analysis of experimental results with Python often requires writing many code scripts which all need access to the same set of functions. In a common field of research, this set will be nearly the same for many users. The qspec Python…
Since its launch in 2008, the Fermi Large Area Telescope (LAT) allowed us to peek into the extremely energetic side of the Universe with unprecedented sensitivity and resolution. The tools available for analyzing Fermi-LAT data are the…
Multimodal large language models are promising for clinical visual question answering tasks, but scaling to 3D imaging is hindered by high computational costs. Prior methods often rely on 2D slices or fixed-length token compression,…
Existing GAN inversion methods fail to provide latent codes for reliable reconstruction and flexible editing simultaneously. This paper presents a transformer-based image inversion and editing model for pretrained StyleGAN which is not only…
Biological image analysis has traditionally focused on measuring specific visual properties of interest for cells or other entities. A complementary paradigm gaining increasing traction is image-based profiling - quantifying many distinct…
A Python package for the analysis of dark-field X-ray microscopy (DFXM) and rocking curve imaging (RCI) data is presented. \textit{darfix} provides a set of data processing and visualization tools that can be either imported as library…
Radio science data collected from NASA's Deep Space Networks (DSNs) are made available in various formats through NASA's Planetary Data System (PDS). The majority of these data are packed in complex formats, making them inaccessible to…
There are numerous approaches to building analysis applications across the high-energy physics community. Among them are Python-based, or at least Python-driven, analysis workflows. We aim to ease the adoption of a Python-based analysis…
We provide an overview of the xFitter open-source software package, review the general capabilities of the program, and highlight applications relevant to the Snowmass study. An updated version of the program (2.2.0) is available on CERN…
The objective of Information Extraction (IE) is to derive structured representations from unstructured or semi-structured documents. However, developing IE models is complex due to the need of integrating several subtasks. Additionally,…
We introduce _transparent documents_, interactive web-based scholarly articles which allow readers to explore the relationship to the underlying data by hovering over fragments of text, and present an LLM-based tool for authoring…
The increasing availability of high-quality optical and near-infrared spectroscopic data, as well as advances in modelling techniques, have greatly expanded the scientific potential of spectroscopic studies. However, the software tools…
Phenotyping consists in applying algorithms to identify individuals associated with a specific, potentially complex, trait or condition, typically out of a collection of Electronic Health Records (EHRs). Because a lot of the clinical…