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ATHENA is an open source Python package for reduction in parameter space. It implements several advanced numerical analysis techniques such as Active Subspaces (AS), Kernel-based Active Subspaces (KAS), and Nonlinear Level-set Learning…
Counters are the fundamental building block of many data sketching schemes, which hash items to a small number of counters and account for collisions to provide good approximations for frequencies and other measures. Most existing methods…
Background: Clinical prediction models are increasingly used to inform healthcare decisions, but determining the minimum sample size for their development remains a critical and unresolved challenge. Inadequate sample sizes can lead to…
This article presents GRFsaw, an open-source software for generating two-phase (binary) microstructures with user-defined structural properties. Unlike most standard software for microstructure generation, GRFsaw is based on the concept of…
Species distribution models (SDMs) are one of the most common statistical methods to assess species occupancy and geographic distribution patterns. With the increasing complexity of ecological data, many methodological approaches have been…
Local Computation Algorithms (LCA), as introduced by Rubinfeld, Tamir, Vardi, and Xie (2011), are a type of ultra-efficient algorithms which, given access to a (large) input for a given computational task, are required to provide fast query…
Basic Linear Algebra Subprograms (BLAS) is a core library in scientific computing and machine learning. This paper presents FT-BLAS, a new implementation of BLAS routines that not only tolerates soft errors on the fly, but also provides…
We develop a new efficient sequential approximate leverage score algorithm, SALSA, using methods from randomized numerical linear algebra (RandNLA) for large matrices. We demonstrate that, with high probability, the accuracy of SALSA's…
The recently proposed Hamiltonian Adaptive Resolution Scheme (H-AdResS) allows to perform molecular simulations in an open boundary framework. It allows to change on the fly the resolution of specific subset of molecules (usually the…
In this chapter we first outline some of the popular computing environments used for analysing neural data, followed by a brief discussion of 'software carpentry', basic tools and skills from software engineering that can be of great use to…
The Agent Based Model community has a rich and diverse ecosystem of libraries, platforms, and applications to help modelers develop rigorous simulations. Despite this robust and diverse ecosystem, the complexity of life from microbial…
The Cosmic Linear Anisotropy Solving System (CLASS) is a new accurate Boltzmann code, designed to offer a more user-friendly and flexible coding environment to cosmologists. CLASS is very structured, easy to modify, and offers a rigorous…
Continuum solvation models enable electronic structure calculations of systems in liquid environments, but because of the large number of empirical parameters, they are limited to the class of systems in their fit set (typically organic…
There are a huge number of problems, from various areas, being solved by reducing them to SAT. However, for many applications, translation into SAT is performed by specialized, problem-specific tools. In this paper we describe a new system…
We present the first open-source, GPU-based code for complex plasmas. The code, OpenDust, aims to provide researchers both experimenters and theorists user-friendly and high-performance tool for self-consistent calculation forces, acting on…
We present $\texttt{NPointFunctions}$, a package to incorporate desired amplitudes and observables for an arbitrary BSM model in $\texttt{FlexibleSUSY}$. The package relies on the $\texttt{SARAH}$-generated output used with…
A simple user-friendly software named PRISA has been developed to determine optical constants (refractive index and extinction co-efficient), dispersion parameters (oscillator energy and dispersion energy), absorption co-efficient, band gap…
Sapo is a C++ tool for the formal analysis of polynomial dynamical systems. Its main features are: 1) Reachability computation, i.e., the calculation of the set of states reachable from a set of initial conditions, and 2) Parameter…
Numerous codes are being developed to solve Shallow Water equations. Because there are used in hydraulic and environmental studies, their capability to simulate properly flow dynamics is critical to guarantee infrastructure and human…
Small-angle X-ray or neutron scattering (SAXS/SANS/SAS) is widely used to obtain structural information on biomolecules or soft-matter complexes in solution. Deriving a molecular interpretation of the scattering signals requires methods for…