Digital Commons Network^™

Manlymix: An R Package For Manly Mixture Modeling, Xuwen Zhu, Volodymyr Melnykov

The R Journal

Model-based clustering is a popular technique for grouping objects based on a finite mixture model. It has countless applications in different fields of study. The R package ManlyMix implements the Manly mixture model that allows modeling skewness within data groups and performs cluster analysis. ManlyMix is a powerful diagnostics tool that is capable of conducting investigation concerning the normality of variables upon fitting of a Manly forward or backward model. Theoretical foundations as well as description of functions are provided. All features of the package are illustrated with examples in great detail. The analysis of real-life datasets demonstrates the flexibility …

Rpsftm: An R Package For Rank Preserving Structural Failure Time Models, Annabel Allison, Ian R. White, Simon Bond

The R Journal

Treatment switching in a randomised controlled trial occurs when participants change from their randomised treatment to the other trial treatment during the study. Failure to account for treatment switching in the analysis (i.e. by performing a standard intention-to-treat analysis) can lead to biased estimates of treatment efficacy. The rank preserving structural failure time model (RPSFTM) is a method used to adjust for treatment switching in trials with survival outcomes. The RPSFTM is due to Robins and Tsiatis (1991) and has been developed by White et al. (1997, 1999).

The method is randomisation based and uses only the randomised treatment group, …

Simulating Probabilistic Long-Term Effects In Models With Temporal Dependence, Christopher Gandrud, Laron K. Williams

The R Journal

The R package pltesim calculates and depicts probabilistic long-term effects in binary models with temporal dependence variables. The package performs two tasks. First, it calculates the change in the probability of the event occurring given a change in a theoretical variable. Second, it calculates the rolling difference in the future probability of the event for two scenarios: one where the event occurred at a given time and one where the event does not occur. The package is consistent with the recent movement to depict meaningful and easy-to-interpret quantities of interest with the requisite measures of uncertainty. It is the first …

Conference Report: R In Insurance 2017, Nicolas Baradel, Christophe Dutang, Caroline Hillairet

The R Journal

The fifth R in Insurance conference took place at Ecole Nationale de la Statistique et de l’Administration Economique (ENSAE, one of the leading French graduate schools in the fields of statistics, economics, finance and actuarial science) Paris on 8 June 2017. This one-day conference focused once more on the wide range of applications of R in insurance, actuarial science and beyond. The conference programme covered topics including reserving, pricing, loss modelling, the use of R in a production environment and also new statistical methods such as big data analysis.

Bayesian Regression Models For Interval-Censored Data In R, Clifford Anderson-Bergman

The R Journal

The package icenReg provides classic survival regression models for interval-censored data. We present an update to the package that extends the parametric models into the Bayesian framework. Core additions include functionality to define the regression model with the standard regression syntax while providing a custom prior function. Several other utility functions are presented that allow for simplified examination of the posterior distribution.

Simulating Noisy, Nonparametric, And Multivariate Discrete Patterns, Ruby Sharma, Sajal Kumar, Hua Zhong, Mingzhou Song

The R Journal

Requiring no analytical forms, nonparametric discrete patterns are flexible in representing complex relationships among random variables. This makes them increasingly useful for data-driven applications. However, there appears to be no software tools for simulating nonparametric discrete patterns, which prevents objective evaluation of statistical methods that discover discrete relationships from data. We present a simulator to generate nonparametric discrete functions as contingency tables. User can request strictly many-to-one functional patterns. The simulator can also produce contingency tables representing dependent non-functional and independent relationships. An option is provided to apply random noise to contingency tables. We demonstrate the utility of the simulator …

Conference Report: User!2017, Tobias Verbeke

The R Journal

After a very successful 2016 edition in Stanford (US), the useR conference invited the R communitytomeetfromJuly4toJuly7inBrussels(Belgium), heart of Europe. The response was extraordinary: 1175 people (of 54 nationalities) travelled the globe to join for a week of intense exchange and discussion. The conference was held in the Wild Gallery which was– for the occasion– the exclusive territory of R aficionados with many co-hosted events including DSC 2017, RIOT 2017 and an R Foundation meeting.

An important theme throughout the conference was to be welcoming and inclusive. In this respect 25 diversity scholarships were awarded and newbies were welcomed at a …

Rentrez: An R Package For The Ncbi Eutils Api, David J. Winter

The R Journal

The USA National Center for Biotechnology Information (NCBI) is one of the world’s most important sources of biological information. NCBI databases like PubMed and GenBank contain mil lions of records describing bibliographic, genetic, genomic, and medical data. Here I present rentrez, a package which provides an R interface to 50 NCBI databases. The package is well-documented, contains an extensive suite of unit tests and has an active user base. The programmatic interface to the NCBI provided by rentrez allows researchers to query databases and download or import particular records into R sessions for subsequent analysis. The complete nature of …

Crtgeedr: An R Package For Doubly Robust Generalized Estimating Equations Estimations In Cluster Randomized Trials With Missing Data, Melanie Prague, Rui Wang, Victor De Gruttola

The R Journal

Semi-parametric approaches based on generalized estimating equations (GEE) are widely used to analyze correlated outcomes in longitudinal settings. In this paper, we present a package CRTgeeDR developed for cluster randomized trials with missing data (CRTs). For use of inverse probability weighting to adjust for missing data in cluster randomized trials, we show that other software lead to biased estimation for non-independence working correlation structure. CRTgeeDR solves this problem. We also extend the ability of existing packages to allow augmented Doubly Robust GEEestimation (DR). Simulation studies demonstrate the consistency of estimators implemented in CRTgeeDR compared to packages such as geepack and …

Bayesbd: An R Package For Bayesian Inference On Image Boundaries, Nicholas Syring, Meng Li

The R Journal

Wepresent the BayesBD package providing Bayesian inference for boundaries of noisy images. The BayesBD package implements flexible Gaussian process priors indexed by the circle to recover the boundary in a binary or Gaussian noised image. The boundary recovered by BayesBD has the practical advantages of guaranteed geometric restrictions and convenient joint inferences under certain assumptions, in addition to its desirable theoretical property of achieving (nearly) minimax optimal rate in a way that is adaptive to the unknown smoothness. The core sampling tasks for our model have linear complexity, and are implemented in C++ for computational efficiency using packages Rcpp and …

Adegraphics: An S4 Lattice-Based Package For The Representation Of Multivariate Data, Aurélie Siberchicot, Alice Julien-Laferrière, Anne-Béatrice Dufour, Jean Thioulouse, Stéphane Dray

The R Journal

The ade4 package provides tools for multivariate analyses. Whereas new statistical methods have been added regularly in the package since its first release in 2002, the graphical functions, that are used to display the main outputs of an analysis, have not benefited from such enhancements. In this context, the adegraphics package, available on CRAN since 2015, is a complete reimplementation of the ade4 graphical functionalities but with large improvements. The package uses the S4 object system (each graph is an object) and is based on the graphical framework provided by lattice and grid. We give a brief description of the …

Arulesviz: Interactive Visualization Of Association Rules With R, Michael Hahsler

The R Journal

Association rule mining is a popular data mining method to discover interesting relation ships between variables in large databases. An extensive toolbox is available in the R-extension package arules. However, mining association rules often results in a vast number of found rules, leaving the analyst with the task to go through a large set of rules to identify interesting ones. Sifting manually through extensive sets of rules is time-consuming and strenuous. Visualization and especially interactive visualization has a long history of making large amounts of data better accessible. The R-extension package arulesViz provides most popular visualization techniques for association …

Queueing: A Package For Analysis Of Queueing Networks And Models In R, Pedro Cañadilla Jiménez, Yolanda Román Montoya

The R Journal

queueing is a package that solves and provides the main performance measures for both basic Markovian queueing models and single and multiclass product-form queueing networks. It can be used both in education and for professional purposes. It provides an intuitive, straightforward wayto build queueing models using S3 methods. The package solves Markovian models of the form M/M/c/K/M/FCFS, open and closed single class Jackson networks, open and closed multiclass networks and mixed networks. Markovian models are used when both the customer inter-arrival time and the server processing time are exponentially distributed. Queueing network solvers are useful for modelling situations in which …

Glmmtmb Balances Speed And Flexibility Among Packages For Zero-Inflated Generalized Linear Mixed Modeling, Mollie E. Brooks, Kasper Kristensen, Koen J. Van Benthem, Arni Magnusson, Casper W. Berg, Anders Nielsen, Hans J. Skaug, Martin Mächler, Benjamin M. Bolker

The R Journal

Count data can be analyzed using generalized linear mixed models when observations are correlated in ways that require random effects. However, count data are often zero-inflated, containing more zeros than would be expected from the typical error distributions. We present a new package, glmmTMB, and compare it to other R packages that fit zero-inflated mixed models. The glmmTMB package fits many types of GLMMs and extensions, including models with continuously distributed responses, but here we focus on count responses. glmmTMB is faster than glmmADMB, MCMCglmm, and brms, and more flexible than INLA and mgcv for zero-inflated …

Digitizing Dinosaur National Monument's Carnegie Quarry, Rebecca Esplin

Theses and Dissertations

The Carnegie Quarry in northeastern Utah is world-renowned for the dinosaur skeletons it has produced and for its in situ display of dinosaur bones. The specimens excavated at Carnegie Quarry are displayed and curated in 20 repositories, most in North America. Data on these specimens in the forms of notes, photographs, publications, field maps, and so on, are scattered in an array of formats and institutions. The primary goal of this thesis is to develop a database linking these data with a digital map (GIS system) to make them readily accessible. To this end, a relational database was created using …

Computational Conformal Geometry And Its Applications, Ming Ma

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

With the development of 3D acquisition technologies and computational power, conformal geometry plays increasingly important role in engineering fields. Conformal geometry has deep roots in pure mathematics, combining complex analysis, Riemann surface theory, differential geometry, and algebraic topology. In recent years, theory of discrete conformal geometry has been developed. They have been extensively applied in many practical fields. Surface remeshing plays a significant role in computer graphics and visualization. Numerous surface remeshing methods have been developed to produce high quality meshes. Generally, the mesh quality is improved in terms of vertex sampling, regularity, triangle size and triangle shape. Many of …

Hemodynamic Characteristics Of Ruptured And Unruptured Multiple Aneurysms At Mirror And Ipsilateral Locations, Ravi Doddasomayajula, Bong Jae Chung, Fernando Mut, Carlos M. Jimenez, Farid Hamzei-Sichani, Christopher M. Putman, Juan R. Cebral

Department of Applied Mathematics and Statistics Faculty Scholarship and Creative Works

BACKGROUND AND PURPOSE: Different hemodynamic patterns have been associated with aneurysm rupture. The objective was to test whether hemodynamic characteristics of the ruptured aneurysm in patients with multiple aneurysms were different from those in unruptured aneurysms in the same patient.

MATERIALS AND METHODS: Twenty-four mirror and 58 ipsilateral multiple aneurysms with 1 ruptured and the others unruptured were studied. Computational fluid dynamics models were created from 3D angiographies. Case-control studies of mirror and ipsilateral aneurysms were performed with paired Wilcoxon tests.

RESULTS: In mirror pairs, the ruptured aneurysm had more oscillatory wall shear stress (P = .007) than the …

Strengths And Limitations Of Nitrogen Rate Recommendations For Corn And Opportunities For Improvement, Thomas F. Morris, T. Scott Murrell, Douglas B. Beegle, James J. Camberato, Richard B. Ferguson, John H. Grove, Quirine Ketterings, Peter M. Kyveryga, Carrie A.M. Laboski, Joshua M. Mcgrath, John J. Meisinger, Jeff Melkonian, Bianca N. Moebius-Clune, Emerson D. Nafziger, Deanna Osmond, John E. Sawyer, Peter C. Scharf, Walter Smith, John T. Spargo, Harold M. Van Es, Haishun Yang

Plant and Soil Sciences Faculty Publications

Nitrogen fi xation by the Haber–Bosch process has more than doubled the amount of fi xed N on Earth, significantly influencing the global N cycle. Much of this fi xed N is made into N fertilizer that is used to produce nearly half of the world’s food. Too much of the N fertilizer pollutes air and water when it is lost from agroecosystems through volatilization, denitrification, leaching, and runoff. Most of the N fertilizer used in the United States is applied to corn (Zea mays L.), and the profitability and environmental footprint of corn production is directly tied to N …

Synthetic And Mechanistic Investigations Of Ruthenium Alkylidene-Catalyzed Alkene-Silane Cross-Coupling Reactions, Apparao Bokka

Chemistry & Biochemistry Dissertations - Archive

Grubbs-type ruthenium alkylidene-catalyzed intramolecular alkene hydrosilylation and intermolecular dehydrogenative silylation and hydrosilylation of vinylarenes have been achieved with high regio- and stereoselectivity. Mechanistic details to support the initial activation of ruthenium complex have been revealed. Chapter 1 describes the uses of organosilanes in various fields. Development of transition metal-catalyzed hydrosilylations, alkene/alkyne metathesis activities of Grubbs-type ruthenium alkylidenes and non-metathetical activities including hydrosilylation of alkynes are discussed. The development of intramolecular hydrosilylation of alkenylsilyl ethers through reaction discovery and optimization is discussed. The strategy developed has been tested successfully on a variety of substrates with varying steric and electronic properties. A …

Slow Down And Smell The Eucalypts: Blue Gum Community School And The Slow Education Movement, Stephen J. Smith

Journal of Global Education and Research

This paper investigates and analyses the features of a non-mainstream pedagogy, educational context and learning environment by presenting a counter-model which contrasts with the currently dominant educational project, an emergent global educational movement known as the Slow Education Movement. It demonstrates how the associated principles and praxes of a particular ethos and its philosophical foundations guide teaching and learning. Set against the background of the Slow Education Movement, the paper draws on a case study to illustrate some of the foundational principles and practices of that movement. The paper outlines the educational ethos, philosophy, processes and practices of Blue Gum …

Wangari Maathai The Educator: Straddling Tradition And Modernity, Namulundah Florence

Journal of Global Education and Research

Wangari Muta Mary Jo Maathai’s (April 1, 1940 – September 25, 2011) public image highlights her nationality, her education both in and outside Kenya, her establishment of the Green Belt Movement (GBM) for which she received a Nobel Peace Prize in 2004, and her political activism. Advocates for female empowerment take solace in success stories like Maathai’s rise from a village girl to become a global icon of leadership. Yet, her mobility was more circumstantial than it was deliberate, and is inseparable from the uneasy compromise between the traditional gender roles of her youth with the critical consciousness nurtured in …

Socratic Metaethics Imagined, Steve Ross, Lisa Warenski

Sophia and Philosophia

A time machine mysteriously appeared one day in ancient Athens. Curious about the future of philosophical dialogue, Socrates entered the device and traveled to the 21st Century. He spent several months in the United Kingdom and United States discussing metaethics before returning to Athens, now a devoted and formidable quasi-realist moral expressivist.

Board Level Solder Joint Reliability Assessment Study Of Megtron 6 Vs Fr-4 Under Power Cycling And Thermal Cycling, Jyotirmoy Denria

Mechanical and Aerospace Engineering Theses - Archive

High frequency laminates like Nelco N4000-13, Isola FR408 and Panasonic Megtron 6 packages gained popularity among the industry due to better and improved electrical performances, Improved impedance control, low moisture absorption, good thermal management. High speed laminates are extensively used in high-speed system-level interconnects like high speed network equipment, mainframes, IC testers and high frequency measuring instruments. When an electronic device is turned off and then turned on multiple times, it creates a loading condition called power cycling. The die is the only heat source causing non-uniform temperature distribution. In this paper, the solder joint reliability assessment of Megtron 6 …

Some New Results For Equilibria Of N-Person Games, Ahmad Nahhas

Industrial, Manufacturing, and Systems Engineering Dissertations - Archive

In this dissertation, we present four journal articles in the area of game theory. In the first article, we define a generalized equilibrium for n-person normal form games. We prove that the Nash equilibrium and the mixed Berge equilibrium are special cases of the generalized equilibrium. In the second article, we study the computational complexity of finding a mixed Berge equilibrium in n-person normal form games. In particular, we prove that the problem is an NP-complete problem for n >= 3. In the third article, we give an interpretation of mixed strategies via resource allocation. Finally, in the fourth article, …

Automated Multistep Classifier Sizing And Training For Deep Learner, Kanishka Tyagi

Electrical Engineering Dissertations - Archive

Training algorithms for deep learning have recently been proposed with notable success, beating the start-of-the-art in certain areas like audio, speech and language processing. The key role is played by learning multiple levels of abstractions in a deep architecture. However, searching the parameters space in a deep architecture is a difficult task. By exploiting the greedy layer-wise unsupervised training strategy of deep architecture, the network parameters are initialized near a good local minima. However, many existing deep learning algorithms require tuning a number of hyperparameters including learning factors and the number of hidden units in each layer. Apart from this, …

Analytical Technique To Evaluate Impact Of Mutual Coupling On Transmission Line Protection Schemes, Azade Brahman

Electrical Engineering Theses - Archive

While there are numerous literatures that have addressed the impact of mutual coupling on the reliability and security of protection schemes and have provided possible mitigation solutions, there has not been adequate research and documentation presenting a comprehensive analytical approach to 1) estimate the magnitude of mutual coupling and 2) quantify the adverse impact of mutual coupling in real-life scenarios under several system faults across various types of protective elements. This should be considered as the first stage of any mutual coupling related study preceding the second stage in which the mitigation against mutual coupling is to be developed. The …

Development Of Qualitative And Quantitative Applications In Energy Industry Using Gas Chromatography- Vacuum Ultraviolet Spectroscopy, Ling Bai

Chemistry & Biochemistry Dissertations - Archive

Characterization and evaluation of hydrocarbon assets, including content of linear and branched alkanes, cycloalkanes, aromatics, olefins, and naphthenes, among others, during production and distribution are very crucial in oil and gas industries. Quantification and qualification of bulk composition of hydrocarbon groups in complex samples like gasoline, diesel, and other high value refinery products is very challenging. Gas chromatography (GC) is the most popular technique among the petrochemical industry and many of the EPA and ASTM methods have been established based on GC for analyzing hydrocarbons in complex mixtures. Though there are many methods available, there are still limitations on the …

Quercus​ ​ Cerris (Turkey Oak) Id# Unknown, Erin E. Stangel

BIO 140 Arboretum Project

Location: near McKillop Library

Height: 41.49 m

Diameter at Breast Height: 4.25 m

Radius of crown: 14.3 m

Condition: Good

Age Class: Mature

Building An Albanian Knowledge Graph From Unstructured Text, Hakan Shehu

Theses and Dissertations

We live in the golden area of information. The World Wide web contains a vast amount of unstructured text in different digital formats, including newswire, blogs, email communications, governmental documents, chat logs, and so on. Some of the biggest companies and organizations have created knowledge bases which represent a semantic network of facts, entities and relations between them. Even though this area has been well researched for a considerable time, there is a lack of implementation of such a knowledge extraction for Albanian language. In this thesis we will try to create an Albanian general knowledge graph from unstructured text. …

Intraneti Dhe Pagesat Elektronike Ne Komunen E Istogut, Faton Bytyçi

Theses and Dissertations

Shfrytëzimi i përparësive të teknologjisë informative është bërë pjesë e pandashme e jetës tonë për të punuar, informuar, argëtuar etj. Një sferë e veçantë e përdorimit të teknologjisë informative është edhe e-Qeverisja e cila po gjënë vend çdo ditë në administratë për të ofruar shërbime të shpejta, të lehta e të sakta për ata që punojnë dhe për ata që i marrin shërbimet nga administrata.

Komuna e Istogut në dhjetë vitet e fundit ka avancuar në masë të madhe përdorimin e teknologjisë informative dhe i ka bërë modernizimin e shërbimeve. Një prej shërbimeve elektronike në këtë komunë është edhe Sistemi …