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Local Radial Basis Function Methods: Comparison, Improvements, and Implementation

Journal of Applied Mathematics and Physics 2023年第12期11卷 3867-3886页

作者： Scott A. Sarra Department of Mathematics Marshall University Huntington USA

Radial Basis Function methods for scattered data interpolation and for the numerical solution of PDEs were originally implemented in a global manner. Subsequently, it was realized that the methods could be implemented more efficiently in a local manner and that the local approaches could match or even surpass the accuracy of the global implementations. In this work, three localization approaches are compared: a local RBF method, a partition of unity method, and a recently introduced modified partition of unity method. A simple shape parameter selection method is introduced and the application of artificial viscosity to stabilize each of the local methods when approximating time-dependent PDEs is reviewed. Additionally, a new type of quasi-random center is introduced which may be better choices than other quasi-random points that are commonly used with RBF methods. All the results within the manuscript are reproducible as they are included as examples in the freely available python Radial Basis Function Toolbox.

关键词： Radial Basis Functions Shape Parameter Selection Quasi-Random Centers Numerical PDEs Scientific Computing Open Source Software python programming language Reproducible Research

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An open architecture for the massively parallel emulation of the Drosophila brain on multiple GPUs

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BMC Neuroscience 2012年第1期13卷 1-2页

作者： Lev E Givon Aurel A Lazar Department of Electrical Engineering Columbia University New York NY 10027 USA

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Detailed visualization and morphometric analysis of reconstructed neurons using Blender and python

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BMC Neuroscience 2011年第1期12卷 1-2页

作者： Paulo Aguiar Peter Szucs Centro de Matematica da Universidade do Porto Portugal Spinal Neuronal Networks Instituto de Biologia Molecular e Celular Portugal

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Research process, recap, and prediction of Chiari malformation based on bicentennial history of nomenclature and terms misuse

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NEUROSURGICAL REVIEW 2023年第1期46卷 316-316页

作者： He, Yunsen Zhang, Mengjun Qin, Xiaohong Huang, Caiquan Liu, Ping Tao, Ye Wang, Yishuang Guo, Lili Bao, Mingbin Li, Hongliang Mao, Zhenzhen Li, Nanxiang He, Zongze Wu, Bo Sichuan Lansheng Brain Hosp Dept Surg 6 Anrong RdChadianzi St Chengdu 610036 Sichuan Peoples R China Shanghai Lansheng Brain Hosp Investment Co Ltd Dept Surg 6 Anrong RdChadianzi St Chengdu 610036 Sichuan Peoples R China Univ Elect Sci & Technol China Sichuan Prov Peoples Hosp Dept Neuropsychol Sichuan Prov Ctr Mental Hlth Chengdu 610072 Peoples R China Univ Elect Sci & Technol China Sichuan Prov Peoples Hosp Dept Surg 32 West Section 2First Ring Rd Chengdu 610072 Sichuan Peoples R China Univ Elect Sci & Technol China Sichuan Prov Peoples Hosp Dept Radiol Chengdu 610072 Peoples R China Sichuan Taikang Hosp Emergency Dept Chengdu 610000 Sichuan Peoples R China

There is an absent systematic analysis or review that has been conducted to clarify the topic of nomenclature history and terms misuse about Chiari malformations (CMs). We reviewed all reports on terms coined for CMs for rational use and provided their etymology and future development. All literature on the nomenclature of CMs was retrieved and extracted into core terms. Subsequently, keyword analysis, preceding and predicting (2023-2025) compound annual growth rate (CAGR) of each core term, was calculated using a mathematical formula and autoregressive integrated moving average model in python. Totally 64,527 CM term usage was identified. Of these, 57 original terms were collected and then extracted into 24 core-terms. Seventeen terms have their own featured author keywords, while seven terms are homologous. The preceding CAGR of 24 terms showed significant growth in use for 18 terms, while 13, three, three, and five terms may show sustained growth, remain stable, decline, and rare in usage, respectively, in the future. Previously, owing to intricate nomenclature, Chiari terms were frequently misused, and numerous seemingly novel but worthless even improper terms have emerged. For a very basic neuropathological phenomenon tonsillar herniation by multiple etiology, a mechanism-based nosology seems to be more conducive to future communication than an umbrella eponym. However, a good nomenclature also should encapsulate all characteristics of this condition, but this is lacking in current CM research, as the pathophysiological mechanisms are not elucidated for the majority of CMs.

关键词： Chiari malformation Nomenclature Scientometrics analysis Keyword analysis python programming language Autoregressive integrated moving average model (ARIMA) Trend forecast Word frequency analysis

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Development of software enabling Chinese medicine-based precision treatment for osteoporosis at the gene and pathway levels

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CHINESE MEDICINE 2022年第1期17卷 47-47页

作者： Li, Jinyu Feng, Guiyu He, Haoyang Wang, Haolin Tang, Jia Han, Aiqing Mu, Xiaohong Zhu, Weifeng Beijing Univ Chinese Med Dongzhimen Hosp Dept Orthoped 5 Haihaicang Beijing 100007 Peoples R China Beijing Univ Chinese Med Dongzhimen Hosp Key Lab Chinese Internal Med Minist Educ & Beijing Beijing Peoples R China Jiangxi Univ Tradit Chinese Med Minist Educ Key Lab Modern Preparat TCM 1688 Meiling Ave Nanchang 330004 Jiangxi Peoples R China Beijing Univ Chinese Med Dongzhimen Hosp 5 Haihaicang Beijing 100007 Peoples R China Beijing Univ Chinese Med Sch Management 11 North Third Ring East Rd Beijing 100105 Peoples R China

Background Precision medicine aims to address the demand for precise therapy at the gene and pathway levels. We aimed to design software to allow precise treatment of osteoporosis (OP) with Chinese medicines (CMs) at the gene and pathway levels. Methods PubMed, EMBASE, Cochrane Library, China National Knowledge Infrastructure (CNKI), China Science and Technology Journal Database (VIP database), and the Wanfang database were searched to identify studies treating osteoporosis with CMs. The TCMSP was used to identify bioactive ingredients and related genes for each CM. Gene expression omnibus (GEO) database and the limma package were used to identify differentially expressed genes in osteoporosis. Perl software was used to identify the shared genes between the bioactive components in CM and osteoporosis. R packages and bioconductor packages were used to define the target relationship between shared genes and their related pathways. Third-party python libraries were used to write program codes. Pyinstaller library was used to create an executable program file. Results Data mining: a total of 164 CMs were included, but Drynariae Rhizoma (gusuibu) was used to present this process. We obtained 44 precise relationships among the bioactive ingredients of Drynariae Rhizoma, shared genes, and pathways. python programming: we developed the software to show the precise relationship among bioactive ingredients, shared genes, and pathways for each CM, including Drynariae Rhizoma. Conclusions This study could increase the precision of CM, and could provide a valuable and convenient software for searching precise relationships among bioactive ingredients, shared genes, and pathways.

关键词： Osteoporosis Traditional Chinese medicine python programming language Data mining Gene and pathway levels

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510 Utilizing python programming for modern genetic evaluation systems

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Journal of Animal Science 2024年第SUPPLEMENT_3期102卷 150–151页

作者： Lee, Kristin Ventura, Ricardo V Schenkel, Flávio S Cánovas, Ángela Vandervoort, Gordon University of Guelph Universidade de São Paulo University of Guelph Centre for Genetic Improvement of Livestock AgSights

Advancements in agricultural data collection and methodologies for data analysis offer opportunities for beef cattle producers to improve herd genetics. Genetic evaluation systems (GES) can benefit from modern programming approaches to keep up with these advancements. python, a fast-developing programming language with scientific computing libraries such as NumPy and SciPy, offers flexibility that allows for quick adoption of superior algorithms and new data sources, as well as easy maintenance of the software over the long-term. This study evaluated the use of python (v3.12.1) for developing a GES capable of executing all the necessary functions expected of modern implementation of GES. A simulated dataset was generated with the R package AlphaSimR to mimic characteristics of the Angus beef cattle breed. The dataset included pedigree information, phenotypic data, and true breeding values (TBVs) for each animal. Phenotypic traits included birth weight (BWT), weaning gain (WG), and post-weaning gain (PWG), with a total of 976,400 animals simulated across 15 generations. The GES software was developed in house, and included components such as data import, pedigree and data preprocessing, calculating inbreeding, constructing the inverse of the numerator relationship matrix, solver initialization, estimation of breeding value, and writing results. The genetic evaluation employed pedigree-based best linear unbiased prediction (BLUP) and a multiple-trait animal model, using a preconditioned conjugate gradient iteration algorithm to solve the mixed model equations. Convergence was assessed using the residual vector norm divided by the right-hand-side norm, with a threshold to declare convergence set to *** software was run on a Linux server with an Intel(R) Xeon(R) Gold 6242 CPU @ 2.80GHz, 96 GB of RAM, and eight cores. Accuracy was measured using Pearson correlation coefficient between TBVs and estimated breeding values (EBVs). To benchmark computing time and solut

关键词： beef cattle genetic evaluation python programming language

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Beginning programming with python for dummies 1

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丛书名： For dummies

2014年

作者： John Paul Mueller

ISBN: (数字)9781118891490

ISBN: (纸本)1118891457;9781118891452;9781118891476;9781118891490

Learn python--the fun and easy way--and get in the programming game today! python is one of the fastest growing programming languages, and no wonder. It requires three to five times less time than developing in Java, is a great building block for learning both procedural and object-oriented programming concepts, and is an ideal language for data analysis. Beginning programming with python For Dummies is the perfect guide to this dynamic and powerful programming language--even if you've never coded before! Author John Paul Mueller draws on his vast programming knowledge and experience to guide you step-by-step through the syntax and logic of programming with python and provides several real-world programming examples to give you hands-on experience trying out what you've learned. Provides a solid understanding of basic computer programming concepts and helps familiarize you with syntax and logic Explains the fundamentals of procedural and object-oriented programming Shows how python is being used for data analysis and other applications Includes short, practical programming samples to apply your skills to real-world programming scenarios Whether you've never written a line of code or are just trying to pick up python, there's nothing to fear with the fun and friendly Beginning programming with python For Dummies leading the way.

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CaveMan Enterprise version 1.0 Software Validation and Verification

CaveMan Enterprise version 1.0 Software Validation and Verif...

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作者： Hart, D. B Sandia National Labs. Albuquerque NM.

The U.S. Department of Energy Strategic Petroleum Reserve stores crude oil in caverns solution-mined in salt domes along the Gulf Coast of Louisiana and Texas. The Caveman software program has been used since the late 1990s as one tool to analyze pressure measurements monitored at each cavern. The purpose of this monitoring is to catch potential cavern integrity issues as soon as possible. The CaveMan software was written in Microsoft Visual Basic, and embedded in a Microsoft Excel workbook; this method of running the Caveman software is no longer sustainable. As such, a new version called CaveMan Enterprise has been developed .CaveMan Enterprise version 1.0 does not have any changes to the CaveMan numerical models. CaveMan Enterprise represents, instead, a change from desktop-managed workbooks to an enterprise framework, moving data management into coordinated databases-and porting the numerical modeling codes into the python programming language. This document provides a report of the code validation and verification testing.

关键词： Software programs Strategic petroleum reserve Crude oil Salt domes Underground storage Pressure measurements Distributed Control Systems (DCS) python programming language Monitoring Cavern integrity testing Caveman enterprise Gulf Coast(Louisiana) Microsoft visual basic programming language

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Preserving Memory Safety in Safe Rust during Interactions with Unsafe languages

Preserving Memory Safety in Safe Rust during Interactions wi...

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作者： Rivera, E MIT Lincoln Laboratory Lexington MA Assistant Secretary of Defense for Research and Engineering Washington DC

Rust is a programming language that simultaneously offers high performance and strong security guarantees. However, these guarantees come at the cost of strict compiler checks that sometimes prevent necessary code patterns. The unsafe keyword allows developers to bypass these compiler checks, and is used in both pure Rust and mixed-language applications. But the use of unsafe undermines the security guarantees of Rust that make it an attractive option in the first *** first demonstrate that within a real-world pure Rust application, many uses of unsafe can be eliminated,or reduced to formally verifiable standard libraries. We then present Galeed, a system for isolating and protecting the Rust heap from access by other programming languages using Intels Memory Protection Key (MPK) technology. We demonstrate both the effectiveness and efficiency of Galeed on Firefox, a web browser written in Rust and C .

关键词： Web browsers Computer programming Computers Computer science Operating systems programming languages Computer programs C programming language Computer languages python programming language Electrical engineering language Mobile operating systems Engineering Standards

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From Visual App Inventor Game to python–An Approach to Motivate Novice Engineering Students to for Novice Engineering Students to Learn programming

From Visual App Inventor Game to Python–An Approach to Moti...

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作者： Lulu Wen Min Ding Xiaolei Xue Hua Li Chongqing Normal University School of Computer and Information Science Chongqing Normal University College of Arts China Fire and Rescue Institute

The boring teaching process of programming courses is an important reason for students' lack of motivation and low participation in learning programming. By analyzing the current teaching status of python language courses, this paper proposes to design a series of gamified cases in the visual App Inventor programming environment to learn the syntax and structured program design of python language. The study aims to improve students' motivation and subjective initiative in learning programming courses through visual educational games, to provide a practical new idea to motivate novice engineering students to learn programming.

关键词： game-based learning visual programming python programming language App Inventor

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