Numerical Analysis and Scientific Computing Commons^™

Personas For Content Creators Via Decomposed Aggregate Audience Statistics, Jisun An, Haewoon Kwak, Bernard J. Jansen

Research Collection School Of Computing and Information Systems

We propose a novel method for generating personas based on online user data for the increasingly common situation of content creators distributing products via online platforms. We use non-negative matrix factorization to identify user segments and develop personas by adding personality such as names and photos. Our approach can develop accurate personas representing real groups of people using online user data, versus relying on manually gathered data.

Multiplex Media Attention And Disregard Network Among 129 Countries, Haewoon Kwak, Jisun An

Research Collection School Of Computing and Information Systems

We built a multiplex media attention and disregard network (MADN) among 129 countries over 212 days. By characterizing the MADN from multiple levels, we found that it is formed primarily by skewed, hierarchical, and asymmetric relationships. Also, we found strong evidence that our news world is becoming a "global village." However, at the same time, unique attention blocks of the Middle East and North Africa (MENA) region, as well as Russia and its neighbors, still exist.

Generating Cultural Personas From Social Data: A Perspective Of Middle Eastern Users, Salminen Joni, Sercan Sengün, Haewoon Kwak, Bernard Jansen, Jisun An, Soon-Gyo Jung, Sarah Vieweg, D. Fox Harrell

Research Collection School Of Computing and Information Systems

We conduct a mixed-method study to better understand the content consumption patterns of Middle Eastern social media users and to explore new ways to present online data by using automatic persona generation. First, we analyze millions of content interactions on YouTube to dynamically generate personas describing behavioral patterns of different demographic groups. Second, we analyze interview data on social media users in the Middle Eastern region to generate additional insights into the dynamically generated personas. Our findings provide insights into social media users in the Middle East, as well as present a novel methodology of using computational analysis and qualitative …

Distributed Knowledge Discovery For Diverse Data, Hossein Hamooni

Computer Science ETDs

In the era of new technologies, computer scientists deal with massive data of size hundreds of terabytes. Smart cities, social networks, health care systems, large sensor networks, etc. are constantly generating new data. It is non-trivial to extract knowledge from big datasets because traditional data mining algorithms run impractically on such big datasets. However, distributed systems have come to aid this problem while introducing new challenges in designing scalable algorithms. The transition from traditional algorithms to the ones that can be run on a distributed platform should be done carefully. Researchers should design the modern distributed algorithms based on the …

A Domain Based Approach To Social Relation Recognition, Qianru Sun, Bernt Schiele, Mario Fritz

Research Collection School Of Computing and Information Systems

Social relations are the foundation of human daily life. Developing techniques to analyze such relations from visual data bears great potential to build machines that better understand us and are capable of interacting with us at a social level. Previous investigations have remained partial due to the overwhelming diversity and complexity of the topic and consequently have only focused on a handful of social relations. In this paper, we argue that the domain-based theory from social psychology is a great starting point to systematically approach this problem. The theory provides coverage of all aspects of social relations and equally is …

Querying And Visualization Of Moving Objects Using Constraint Databases, Semere M. Woldemariam

School of Computing: Dissertations, Theses, and Student Research

Good querying and visualization of moving objects and their trajectories is still an open problem. This thesis investigates three types of moving objects. First, projectiles, whose parabolic motion is difficult to represent. Second, moving objects that slide down a slope. The representation of these objects is challenging because of their accelerating motion. Third, the motion of migrating animals. The motion of migrating animals is challenging because it also involves some spatio-temporal interpolation. The thesis shows a solution to these problems using ideas from physics and an implementation in the MLPQ constraint databases system. The MLPQ implementation enables several complex spatio-temporal …

Homogenization Of Plastic Deformation In Heterogeneous Lamella Structures, Rui Yuan, Irene J. Beyerlein, Caizhi Zhou

Materials Science and Engineering Faculty Research & Creative Works

It has been shown that unlike its constituent nanocrystalline (NC) phase, a heterogeneous lamella (HL) composite comprising NC and coarse-grain layers exhibits greatly improved ductility. To understand the origin of this enhancement, we present a 3D discrete dislocation, crystal plasticity finite element model to study the development of strains across this microstructure. Here we show that the HL structure homogenizes the plastic strains in the NC layer, weakening the effect of strain concentrations. These findings can provide valuable insight into the effects of material length scales on material instabilities, which is needed to design heterogeneous structures with superior properties.

A Nash Equilibrium Formulation Of A Tradable Credits Scheme For Incentivizing Transport Choices: From Next-Generation Public Transport Mode Choice To Hot Lanes, Salem Lahlou, Laura Wynter

Research Collection School Of Computing and Information Systems

We consider a tradable credits scheme for binary transport games where one option is faster (or more comfortable) than the other, but its quality of service suffers when usage is high. Applications can be found in mode choice (public transit versus road transport), premium (i.e., express bus) versus ordinary public transit, and fast (e.g., high-occupancy toll, or HOT) versus regular lanes on expressways. We are motivated in particular by the choice between public transport and use of the road network as a privilege to be discouraged. In a future where GPS-based time-distance-place road charging exists, such next-generation transport management strategies …

A Weighted Maximum Matching Algorithm For Influence Maximization And Structural Controllability, Giorgio Sartor, Yeow Khiang Chia, Laura Wynter, Justin Ruths

Research Collection School Of Computing and Information Systems

Structural control and influence maximization on networks both admit the problem of selecting a particular subset of nodes. In structural control, the subset of nodes should guarantee the controllability of the network (in the usual sense) for almost any combination of weights. In influence maximization, given a diffusion process over the network, the chosen subset of nodes (of a given cardinality) should produce the greatest diffusive influence over the rest of the network. While structural control exploits only the structure of the network, influence maximization depends both on the structure and the weights of the edges. We modify an algorithm …

Demographics Of News Sharing In The U.S. Twittersphere, Julio C.S. Reis, Haewoon Kwak, Jisun An, Johnnatan Messias, Benevenuto Fabrıcio.

Research Collection School Of Computing and Information Systems

The widespread adoption and dissemination of online news through social media systems have been revolutionizing many segments of our society and ultimately our daily lives. In these systems, users can play a central role as they share content to their friends. Despite that, little is known about news spreaders in social media. In this paper, we provide the first of its kind in-depth characterization of news spreaders in social media. In particular, we investigate their demographics, what kind of content they share, and the audience they reach. Among our main findings, we show that males and white users tend to …

Design Study Of A Heavy Duty Load Cell Using Finite Element Analysis: A Practical Introduction To Mechatronic Design Process, Mohamad Saleh

The ITB Journal

Mechatronics design process is a series of analytical brain storming operations from sepcification to implementation. The mechtronic products are widly available in the market for various use and applications. This is expected to develop futher in the future with great competitiveness. In order to succeed in the market, mechatronic products need to satisfy the market expectations with regard to quality, fitness for purpose, customer's appeal and cost efficiency. Therefore, the design analysis techniques play a significat part in the market success of these products. Finite Element Analysis is probably the most commonly used numerical technique for mechatronic product design. This …

The R Journal (June 2017) 9(1): Complete Issue, The R Foundation

The R Journal

Editorial, Roger Bivand

Contributed Research Articles

iotools: High-Performance I/O Tools for R, Taylor Arnold, Michael J. Kane, and Simon Urbanek

IsoGeneGUI: Multiple Approaches for Dose-Response Analysis of Microarray Data Using R, Martin Otava, Rudradev Sengupta, Ziv Shkedy, Dan Lin, Setia Pramana, Tobias Verbeke, Philippe Haldermans, Ludwig A. Hothorn, Daniel Gerhard, Rebecca M. Kuiper, Florian Klinglmueller, and Adetayo Kasim

Network Visualization with ggplot2, Sam Tyner, François Briatte, and Heike Hofmann

OrthoPanels: An R Package for Estimating a Dynamic Panel Model with Fixed Effects Using the Orthogonal Reparameterization Approach, Mark Pickup, Paul Gustafson, Davor Cubranic, and Geoffrey Evans

The mosaic Package: Helping …

The Noisefiltersr Package: Label Noise Preprocessing In R, Pablo Morales, Julián Luengo, Luís P.F. Garcia, Ana C. Lorena, André C.P.L.F. De Carvalho

The R Journal

In Data Mining, the value of extracted knowledge is directly related to the quality of the used data. This makes data preprocessing one of the most important steps in the knowledge discovery process. A common problem affecting data quality is the presence of noise. A training set with label noise can reduce the predictive performance of classification learning techniques and increase the overfitting of classification models. In this work we present the NoiseFiltersR package. It contains the first extensive R implementation of classical and state-of-the-art label noise filters, which are the most common techniques for preprocessing label noise. The algorithms …

Hosting Data Packages Via Drat: A Case Study With Hurricane Exposure Data, G Brooke Anderson, Dirk Eddelbuettel

The R Journal

Data-only packages offer a way to provide extended functionality for other R users. However, such packages can be large enough to exceed the package size limit (5 megabytes) for the Comprehensive R Archive Network (CRAN). As an alternative, large data packages can be posted to additional repostiories beyond CRAN itself in a way that allows smaller code packages on CRAN to access and use the data. The drat package facilitates creation and use of such alternative repositories and makes it particularly simple to host them via GitHub. CRAN packages can draw on packages posted to drat repositories through the use …

Milr: Multiple-Instance Logistic Regression With Lasso Penalty, Ping-Yang Chen, Ching-Chuan Chen, Chun-Hao Yang, Sheng-Mao Chang, Kuo-Jung Lee

The R Journal

The purpose of the milr package is to analyze multiple-instance data. Ordinary multiple instance data consists of many independent bags, and each bag is composed of several instances. The statuses of bags and instances are binary. Moreover, the statuses of instances are not observed, whereas the statuses of bags are observed. The functions in this package are applicable for analyzing multiple-instance data, simulating data via logistic regression, and selecting important covariates in the regression model. To this end, maximum likelihood estimation with an expectation-maximization algorithm is implemented for model estimation, and a lasso penalty added to the likelihood function is …

Flan: An R Package For Inference On Mutation Models, Adrien Mazoyer, Rémy Drouilhet, Stéphane Despréaux, Bernard Ycart

The R Journal

This paper describes flan, a package providing tools for fluctuation analysis of mutant cell counts. It includes functions dedicated to the distribution of final numbers of mutant cells. Parametric estimation and hypothesis testing are also implemented, enabling inference on different sorts of data with several possible methods. An overview of the subject is proposed. The general form of mutation models is described, including the classical models as particular cases. Estimating from a model, when the data have been generated by another, induces different possible biases, which are identified and discussed. The three estimation methods available in the package are …

Psf: Introduction To R Package For Pattern Sequence Based Forecasting Algorithm, Neeraj Bokde, Gualberto Asencio-Cortés, Francisco Martínez-Álvarez, Kishore Kulat

The R Journal

This paper introduces the R package that implements the Pattern Sequence based Forecasting (PSF) algorithm, which was developed for univariate time series forecasting. This algorithm has been successfully applied to many different fields. The PSF algorithm consists of two major parts: clustering and prediction. The clustering part includes selection of the optimum number of clusters. It labels time series data with reference to such clusters. The prediction part includes functions like optimum window size selection for specific patterns and prediction of future values with reference to past pattern sequences. The PSF package consists of various functions to implement the PSF …

Market Area Analysis For Retail And Service Locations With Mci, Thomas Wieland

The R Journal

In retail location analysis, marketing research and spatial planning, the market areas of stores and/or locations are a frequent subject. Market area analyses consist of empirical observations and modeling via theoretical and/or econometric models such as the Huff Model or the Multiplicative Competitive Interaction Model. The authors’ package MCI implements the steps of market area analysis into R with a focus on fitting the models and data preparation and processing.

Update Of The Nlme Package To Allow A Fixed Standard Deviation Of The Residual Error, Simon H. Heisterkamp, Engelbertus Van Willigen, Paul-Matthias Diderichsen, John Maringwa

The R Journal

The use of linear and non-linear mixed models in the life sciences and pharmacometrics is common practice. Estimation of the parameters of models not involving a system of differential equations is often done by the R or S-Plus software with the nonlinear mixed effects nlme package. The estimated residual error may be used for diagnosis of the fitted model, but not whether the model correctly describes the relation between response and included variables including the true covariance structure. The latter is only true if the residual error is known in advance. Therefore, it maybe necessary or more appropriate to fix …

Autoimage: Multiple Heat Maps For Projected Coordinates, Joshua P. French

The R Journal

Heat maps are commonly used to display the spatial distribution of a response observed on a two-dimensional grid. The autoimage package provides convenient functions for constructing multiple heat maps in unified, seamless way, particularly when working with projected coordinates. The autoimage package natively supports: 1. automatic inclusion of a color scale with the plotted image, 2. construction of heat maps for responses observed on regular or irregular grids, as well as non-gridded data, 3. construction of a matrix of heat maps with a common color scale, 4. construction of a matrix of heat maps with individual color scales, 5. projecting …

Imputets: Time Series Missing Value Imputation In R, Steffen Moritz, Thomas Bartz-Beielstein

The R Journal

The imputeTS package specializes on univariate time series imputation. It offers multiple state-of-the-art imputation algorithm implementations along with plotting functions for time series missing data statistics. While imputation in general is a well-known problem and widely covered by R packages, finding packages able to fill missing values in univariate time series is more complicated. The reason for this lies in the fact, that most imputation algorithms rely on inter-attribute correlations, while univariate time series imputation instead needs to employ time dependencies. This paper provides an introduction to the imputeTS package and its provided algorithms and tools. Furthermore, it gives a …

On Some Extensions To Ga Package: Hybrid Optimisation, Parallelisation And Islands Evolution, Luca Scrucca

The R Journal

Genetic algorithms are stochastic iterative algorithms in which a population of individuals evolve by emulating the process of biological evolution and natural selection. The R package GA provides a collection of general purpose functions for optimisation using genetic algorithms. This paper describes some enhancements recently introduced in version 3 of the package. In particular, hybrid GAs have been implemented by including the option to perform local searches during the evolution. This allows to combine the power of genetic algorithms with the speed of a local optimiser. Another major improvement is the provision of facilities for parallel computing. Parallelisation has been …

Mdplot: Visualise Molecular Dynamics, Christian Margreitter, Chris Oostenbrink

The R Journal

The MDplot package provides plotting functions to allow for automated visualisation of molecular dynamics simulation output. It is especially useful in cases where the plot generation is rather tedious due to complex file formats or when a large number of plots are generated. The graphs that are supported range from those which are standard, such as RMSD/RMSF (root-mean-square deviation and root-mean-square fluctuation, respectively) to less standard, such as thermodynamic integration analysis and hydrogen bond monitoring over time. All told, they address many commonly used analyses. In this article, we set out the MDplot package’s functions, give examples of the function …

Working With Daily Climate Model Output Data In R And The Futureheatwaves Package, G Brooke Anderson, Colin Eason, Elizabeth A. Barnes

The R Journal

Research on climate change impacts can require extensive processing of climate model output, especially when using ensemble techniques to incorporate output from multiple climate models and multiple simulations of each model. This processing can be particularly extensive when identifying and characterizing multi-day extreme events like heat waves and frost day spells, as these must be processed from model output with daily time steps. Further, climate model output is in a format and follows standards that may be unfamiliar to most R users. Here, we provide an overview of working with daily climate model output data in R. We then present …

Network Visualization With Ggplot2, Sam Tyner, François Briatte, Heike Hofmann

The R Journal

This paper explores three different approaches to visualize networks by building on the grammar of graphics framework implemented in the ggplot2 package. The goal of each approach is to provide the user with the ability to apply the flexibility of ggplot2 to the visualization of network data, including through the mapping of network attributes to specific plot aesthetics. By incorporating networks in the ggplot2 framework, these approaches (1) allow users to enhance networks with additional information on edges and nodes, (2) give access to the strengths of ggplot2, such as layers and facets, and (3) convert network data objects …

Iotools: High-Performance I/O Tools For R, Taylor Arnold, Michael J. Kane, Simon Urbanek

The R Journal

The iotools package provides a set of tools for input and output intensive data processing in R. The functions chunk.apply and read.chunk are supplied to allow for iteratively loading contiguous blocks of data into memory as raw vectors. These raw vectors can then be efficiently converted into matrices and data frames with the iotools functions mstrsplit and dstrsplit. These functions minimize copying of data and avoid the use of intermediate strings in order to drastically improve performance. Finally, we also provide read.csv.raw to allow users to read an entire dataset into memory with the same efficient parsing code. In this …

Dgaselid: An R Package For Selecting A Variable Number Of Features In High Dimensional Data, Nicolae Teodor Melita, Stefan Holban

The R Journal

The dGAselID package proposes an original approach to feature selection in high dimensional data. The method is built upon a diploid genetic algorithm. The genotype to phenotype mapping is modeled after the Incomplete Dominance Inheritance, over passing the necessity to define a dominance scheme. The fitness evaluation is done by user selectable supervised classifiers, from a broad range of options. Cross validation options are also accessible. A new approach to crossover, inspired from the random assortment of chromosomes during meiosis is included. Several mutation operators, inspired from genetics, are also proposed. The package is fully compatible with the data formats …

Orthopanels: An R Package For Estimating A Dynamic Panel Model With Fixed Effects Using The Orthogonal Reparameterization Approach, Mark Pickup, Paul Gustafson, Davor Cubranic, Geoffrey Evans

The R Journal

This article describes the R package OrthoPanels, which includes the function opm(). This function implements the orthogonal reparameterization approach recommended by Lancaster(2002) to estimate dynamic panel models with fixed effects(and optionally: wave specific intercepts). This article provides a statistical description of the orthogonal reparameterization approach, a demonstration of the package using real-world data, and simulations comparing the estimator to the known-to-be-biased OLSestimator and the commonly used GMM estimator.

Editorial, Roger Bivand

The R Journal

This new issue, Volume 9, Issue 1, of the R Journal contains 33 contributed research articles, like the second issue of 2016. Most of the articles present R packages, and cover a very wide range of uses of R. Our journal continues to be critically dependent on its readers, authors, reviewers and editors. Annual submission numbers have grown markedly, but the rate of growth is less than that of the number of CRAN packages. Table 1 shows the outcomes of submitted contributed articles by year of submission. The proportion of submissions reaching publication has been roughly half since 2012.

Minval: An R Package For Minimal Validation Of Stoichiometric Reactions, Daniel Osorio, Janneth González, Andrés Pinzón

The R Journal

A genome-scale metabolic reconstruction is a compilation of all stoichiometric reactions that can describe the entire cellular metabolism of an organism, and they have become an indispensable tool for our understanding of biological phenomena, covering fields that range from systems biology to bioengineering. Interrogation of metabolic reconstructions are generally carried through Flux Balance Analysis, an optimization method in which the biological sense of the optimal solution is highly sensitive to thermodynamic unbalance caused by the presence of stoichiometric reactions whose compounds are not produced or consumed in any other reaction (orphan metabolites) and by mass unbalance. The minval package was …