Related papers: PALP - a User Manual
We introduce TopoX, a Python software suite that provides reliable and user-friendly building blocks for computing and machine learning on topological domains that extend graphs: hypergraphs, simplicial, cellular, path and combinatorial…
The perfectly matchable subgraph polytope of a graph is a (0,1)-polytope associated with the vertex sets of matchings in the graph. In this paper, we study algebraic properties (compressedness, Gorensteinness) of the toric rings of…
We report on the new functionality of the open-source Mathematica package FeynCalc relevant for multiloop calculations. In particular, we focus on such tasks as topology identification by means of the Pak algorithm, search for equivalent…
The R package panelPomp supports analysis of panel data via a general class of partially observed Markov process models (PanelPOMP). This package tutorial describes how the mathematical concept of a PanelPOMP is represented in the software…
The majority of existing large 3D shape datasets contain meshes that lend themselves extremely well to visual applications such as rendering, yet tend to be topologically invalid (i.e, contain non-manifold edges and vertices, disconnected…
We present POAPS, a novel planning system for defining Partially Observable Markov Decision Processes (POMDPs) that abstracts away from POMDP details for the benefit of non-expert practitioners. POAPS includes an expressive adaptive…
A genome-scale reconstruction of human metabolism, Recon 2, is available but no interface exists to interactively visualise its content integrated with omics data and simulation results. We manually drew a comprehensive map, ReconMap 2.0,…
Reeb graphs are an important tool for abstracting and representing the topological structure of a function defined on a manifold. We have identified three properties for faithfully representing Reeb graphs in a visualization: they should be…
We present an improved version of our program package oneloop which -- written as a package for MAPLE -- solves one-loop Feynman integrals. The package is calculating one-, two- and three-point functions both algebraically and numerically…
We present our implementation of an algorithm which functions as a numerical oracle for the Newton polytope of a hypersurface in the Macaulay2 package NumericalNP.m2. We propose a tropical membership test, relying on this algorithm, for…
We present a new interface called FeynHelpers that connects FeynCalc, a Mathematica package for symbolic semi-automatic evaluation of Feynman diagrams and calculations in quantum field theory (QFT) to Package-X and FIRE. The former provides…
The Simplex algorithm for solving linear programs-one of Computing in Science & Engineering's top 10 most influential algorithms of the 20th century-is an important topic in many algorithms courses. While the Simplex algorithm relies on…
We present the first public release of ShapePipe, an open-source and modular weak-lensing measurement, analysis, and validation pipeline written in Python. We describe the design of the software and justify the choices made. We provide a…
Bayesian Networks (BNs) are used in various fields for modeling, prediction, and decision making. pgmpy is a python package that provides a collection of algorithms and tools to work with BNs and related models. It implements algorithms for…
We present a unifying framework for generating extended formulations for the polyhedral outer approximations used in algorithms for mixed-integer convex programming (MICP). Extended formulations lead to fewer iterations of outer…
It is demonstrated that the well-regularized hypergeometric functions can be evaluated directly and numerically. The package NumExp is presented for expanding hypergeometric functions and/or other transcendental functions in a small…
This book is an introduction to the nascent field of Fourier analysis on polytopes, and cones. There is a rapidly growing number of applications of these methods, so it is appropriate to invite students, as well as professionals, to the…
We present pySecDec, a new version of the program SecDec, which performs the factorisation of dimensionally regulated poles in parametric integrals, and the subsequent numerical evaluation of the finite coefficients. The algebraic part of…
Galaxy morphological classification is a fundamental aspect of galaxy formation and evolution studies. Various machine learning tools have been developed for automated pipeline analysis of large-scale surveys, enabling a fast search for…
We present GrassmannTN, a Python package for the computation of the Grassmann tensor network. The package is built to assist in the numerical computation without the need to input the fermionic sign factor manually. It prioritizes coding…