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HEALPix -- the Hierarchical Equal Area isoLatitude Pixelization -- has become a standard in high-energy and gravitational wave astronomy. Originally developed to improve the efficiency of all-sky Fourier analyses, it is now also utilized to…
We present an overview of Sherpa, an open source Python project, and discuss its development history, broad design concepts and capabilities. Sherpa contains powerful tools for combining parametric models into complex expressions that can…
We present a Python toolbox for holographic and tomographic X-ray imaging. It comprises a collection of phase retrieval algorithms for the deeply holographic and direct contrast imaging regimes, including non-linear approaches and extended…
astroquery is a collection of tools for requesting data from databases hosted on remote servers with interfaces exposed on the internet, including those with web pages but without formal application program interfaces (APIs). These tools…
An increasing volume of studies utilize geocomputation methods in large spatial data. There is a bottleneck in scalable computation for general scientific use as the existing solutions require high-performance computing domain knowledge and…
Conducting research often involves managing multiple disconnected tools for survey design, data collection, response analysis, and report generation, leading to inefficiencies, increased error risks, and challenges in ensuring…
We present DataDeps.jl: a julia package for the reproducible handling of static datasets to enhance the repeatability of scripts used in the data and computational sciences. It is used to automate the data setup part of running software…
SimOmics is an R package designed to generate realistic, multivariate, and multi-omics synthetic datasets. It is intended for use in benchmarking, method development, and reproducibility in bioinformatics, particularly in the context of…
NEMESISPY is a Python package developed to perform parametric atmospheric modelling and radiative transfer calculation for the retrievals of exoplanetary spectra. It is a recent development of the well-established Fortran NEMESIS library…
We present a short tutorial on to the use of the R gasper package. Gasper is a package dedicated to signal processing on graphs. It also provides an interface to the SuiteSparse Matrix Collection.
While clustering is one of the most popular methods for data mining, analysts lack adequate tools for quick, iterative clustering analysis, which is essential for hypothesis generation and data reasoning. We introduce Clustrophile, an…
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…
The mapper algorithm is a popular tool from topological data analysis for extracting topological summaries of high-dimensional datasets. In this paper, we present Mapper Interactive, a web-based framework for the interactive analysis and…
The integration of sequencing data with clinical information is a widely accepted strategy in bioinformatics and health informatics. Despite advanced databases and sophisticated tools for processing omics data, challenges remain in handling…
We present the first public version (v0.2) of the open-source and community-developed Python package, Astropy. This package provides core astronomy-related functionality to the community, including support for domain-specific file formats…
The establishment of bioRxiv facilitated the rapid adoption of preprints in the life sciences, accelerating the dissemination of new research findings. However, the sheer volume of preprints published daily can be overwhelming, making it…
Trajectories, sequentially measured quantities that form a path, are an important presence in many different fields, from hadronic beams in physics to electrocardiograms in medicine. Trajectory anal-ysis requires the quantification and…
Canopy fuels and surface fuel models, topographic features and other canopy attributes such as stand height and canopy cover, provide the necessary spatial datasets required by various fire behaviour modelling simulators. This is a…
With the emergence of a new pandemic worldwide, a novel strategy to approach it has emerged. Several initiatives under the umbrella of "open science" are contributing to tackle this unprecedented situation. In particular, the "R Language…
The usage of the high-level scripting language Python has enabled new mechanisms for data interrogation, discovery and visualization of scientific data. We present yt, an open source, community-developed astrophysical analysis and…