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Publications related to R Statistical Package (3,153)
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Article
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With the development of new technologies, some concepts become relevant in the economic area, as is the case with cryptocurrencies, in general, or Bitcoin and Ethereum, in particular. Due to the impact of these tools, a detailed bibliometric study that allows us to obtain all information about cryptocurrencies must be conducted. This study will hel...
Article
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Somatic copy number variations (SCNVs) are genetic alterations frequently found in cancer cells. These genetic alterations can lead to concomitant perturbations in the expression of the genes included in them and, as a result, promote a selective advantage to cancer cells. However, this is not always the case. Due to this, it is important to develo...
Preprint
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Techniques that quantify the robustness or sensitivity of statistical inferences to various sources of bias and potential uncertainty are becoming increasingly important to researchers across many fields, including economics, education, epidemiology, public policy, and sociology. Drawing on Rubin's causal model, Frank and colleagues developed Robus...
Article
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Molecular diagnostic testing has played a critical role in the global response to the novel Coronavirus disease (COVID-19) pandemic, since its first outbreak in late 2019. At the inception of the COVID-19 pandemic, nasopharyngeal swab sample analysis for COVID-19 diagnosis using the real-time polymerase chain reaction (RT-PCR) technique was the mos...
Article
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In this paper, we introduce the R package NetDA, which aims to deal with multiclassi cation with network structures in predictors accommodated. To address the natural feature of network structures, we apply Gaussian graphical models to characterize dependence structures of the predictors and directly estimate the precision matrix. After that, the e...
Article
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It has been underscored by recent studies that ending DACA would place a severe economic strain on businesses around the country. In 2017, the United States of America's Citizenship and Immigration Services reported that a total of nearly 800,000 immigrants have obtained the status of Deferred Action for Childhood Arrivals (or DACA), thereby rapidl...
Article
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Meta-analysis techniques allow researchers to jointly analyse different studies to determine common effects. In the field of transcriptomics, these methods have gained popularity in recent years due to the increasing number of datasets that are available in public repositories. Despite this, there is a limited number of statistical software package...
Article
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The metabolites produced by the gut microbiota have been reported as crucial agents against obesity; however, their key targets have not been revealed completely in complex microbiome systems. Hence, the aim of this study was to decipher promising prebiotics, probiotics, postbiotics, and more importantly, key target(s) via a network pharmacology ap...
Preprint
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Estimating sample size and statistical power is an essential part of a good study design. This R package allows users to conduct power analysis based on Monte Carlo simulations in settings in which consideration of the correlations between predictors is important. It runs power analyses given a data generative model and an inference model. It can s...
Article
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Introduction: The rapid spread of COVID-19 has been a global public health problem and it is yet to be put under control. Active COVID-19 is associated with unrestrained secretion of pro-inflammatory cytokines and imbalances in haematological profile including anaemia, leukocytosis and thrombocytopaenia. However, the haematological profile and imm...
Article
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Background HNF1A-MODY is a monogenic form of diabetes caused by variants in the HNF1A gene. Different HNF1A variants are associated with differences in age of disease onset, but other factors are postulated to influence this trait. Here, we searched for genetic variants influencing age of HNF1A-MODY onset. Methods Blood samples from 843 HNF1A-MODY...
Article
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Assessing the current scientific situation helps to recognize the gaps and strengths of brachytherapy research projects. This research project was conducted to assess the knowledge domain and emerging trends in brachytherapy through a scientometric perspective. For the present research, the Web of Science database was considered as the data source....
Article
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In sub-Saharan Africa, rapid population growth, urbanization, increasing incomes, and changing dietary preferences are the main drivers of the rising demand for livestock products, especially fresh milk and derived products. To meet this demand, there is an increasing number of dairy cattle farms in the densely populated coastal zone of Benin, wher...
Article
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BACKGROUND It is recommended that bariatric surgery candidates undergo psychological assessment. However, no specific instrument exists to assess the psychological well-being of bariatric patients, before and after surgery, and for which all constructs are valid for both genders. AIMS This study aimed to develop and validate a new psychometric ins...
Preprint
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We develop an R package RMM to implement a Conditional Logit (CL) model using the Robust Demand Estimation (RDE) method introduced in Cho et al. (2020), a customer choice-based $\textbf{R}$evenue $\textbf{M}$anagement $\textbf{M}$odel. In business, it is important to understand customers' choice behavior and preferences when the product prices chan...
Preprint
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Inter-limb asymmetries relate to increased incidence of injury and decreased athletic performance. Current methods of assessing inter-limb asymmetries requires custom MS Excel Spreadsheets. The interlimb R package provides an open-source alternative to assessing inter-limb asymmetry scores. This paper briefly explores inter-limb asymmetry mathemati...
Preprint
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Background In Ethiopia, Cutaneous Leishmaniasis (CL) is a common infectious disease. However, existing knowledge on community awareness is scarce. Objective Objectives is to access knowledge, attitude, and practices about CL in Sodo District. Methods Primary quantitative method using a cross-sectional descriptive approach was applied. Data were c...
Article
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Modelling of plant growth is vital for hypotheses testing and carrying out virtual plant growth and development experiments, which may otherwise take a long time under field conditions. Modelling of plant growth has been aggravated by new phenotyping platforms that generate high dimensional data non-destructively over the entire growth time of a pl...
Article
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Mendelian randomisation (MR) is an increasingly popular method for strengthening causal inference in epidemiological studies. cis-MR in particular uses genetic variants in the gene region of a drug target protein as an instrumental variable to provide quasi-experimental evidence for on-target drug effects. A limitation of this framework is when the...
Article
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The concept of Essential Biodiversity Variables (EBVs) was conceived to study, report, and manage biodiversity change. The EBV netCDF structure was developed in order to support publication and interoperability of biodiversity data. This standard is based on the Network Common Data Format (netCDF). Additionally, it follows the Climate and Forecast...
Preprint
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A tool to measure perception of aphrodisiac use by university institution undergraduates was developed and validated. The study was hinged on several theories that could explain potential to use aphrodisiac among the youths. A cross-sectionally designed study that evolved from qualitative and quantitative processes deployed a pretested instrument a...
Article
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Groundwater is a vital resource that accounts for around 30% of the world’s freshwater resources. In arid and semi-arid zones, the human dependency on groundwater is comparatively very high, and its quality signifcantly impacts human health. Both anthropogenic and natural factors have led to changes in hydrodynamics of groundwater resources and w...
Technical Report
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Manual for the R package PracTools v.1.2.8. Functions and datasets to support Valliant, Dever, and Kreuter, Practical Tools for Designing and Weighting Survey Samples (2nd edition, 2018). Contains functions for sample size calculation for survey samples using stratified or clustered one-, two-, and three-stage sample designs, and single-stage audit...
Article
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Background The morbidity and mortality of colorectal cancer (CRC) remain high, posing a serious threat to human life and health. The early diagnosis and prognostic evaluation of CRC are two major challenges in clinical practice. MTUS1 is considered a tumour suppressor and can play an important role in inhibiting cell proliferation, migration, and t...
Preprint
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Dark matter simulations require statistical techniques to properly identify and classify their halos and structures. Nonparametric solutions provide catalogs of these structures but lack the additional learning of a model-based algorithm and might misclassify particles in merging situations. With mixture models, we can simultaneously fit multiple d...
Preprint
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The sparse group lasso is a high-dimensional regression technique that is useful for problems whose predictors have a naturally grouped structure and where sparsity is encouraged at both the group and individual predictor level. In this paper we discuss a new R package for computing such regularized models. The intention is to provide highly optimi...
Article
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Early Leaf Spot (ELS) caused by the fungus Passalora arachidicola and Late Leaf Spot (LLS) also caused by the fungus Nothopassalora personata, are the two major groundnut ( Arachis hypogaea L.) destructive diseases in Ghana. Accurate phenotyping and genotyping to develop groundnut genotypes resistant to Leaf Spot Diseases (LSD) and to increase grou...
Article
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Partial least squares structural equation modeling (PLS-SEM) is an alternative method to the historically more commonly used covariance-based SEM (CB-SEM) when analyzing the data using structural equation modeling (SEM). The article starts by introducing PLS-SEM to second language and education research, followed by a discussion of situations in wh...
Article
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The paper investigates the importance of business intelligence solutions in modern enterprises using association rule mining techniques. The research is based on a questionnaire addressed to different employee target groups regarding their age interval, their employment status, their domain of employment, their experience or inexperience with busin...
Article
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Background The prevalence of diabetes mellitus (DM) is increasing globally, and this requires several approaches to screening. There are reports of alternative indices for prediction of DM, besides fasting blood glucose (FBG) level. This study, investigated the ability of combination of biochemical and anthropometric parameters and orodental diseas...
Article
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Short sprint performance is one of the most distinguishable and admired physical traits in sports. Short sprints have been modeled using the mono-exponential equation that involves two parameters: (1) maximum sprinting speed (MSS) and (2) relative acceleration (TAU). The most common methods to assess short sprint performance are with a radar gun or...
Article
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Alcoholic liver disease (ALD) is linked to a broad spectrum of diseases, including diabetes, hypertension, atherosclerosis, and even liver carcinoma. The ALD spectrum includes alcoholic fatty liver disease (AFLD), alcoholic hepatitis, and cirrhosis. Most recently, some reports demonstrated that the pathogenesis of ALD is strongly associated with me...
Article
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Background COVID-19 has caused over 305 million infections and nearly 5.5 million deaths globally. With complete eradication unlikely, organizations will need to evaluate their risk and the benefits of mitigation strategies, including the effects of regular asymptomatic testing. We developed a web application and R package that provides estimates a...
Article
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Purpose: This study aimed to investigate the heritability of corneal parameters obtained by Pentacam in nuclear families with keratoconus (KC). Methods: A total of 82 patients with KC and their biological parents (n = 164) were recruited in the current study. All subjects underwent corneal tomography with Pentacam. Family units were analyzed to...
Article
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Background With the rise of artificial intelligence (AI) in ophthalmology, the need to define its diagnostic accuracy is increasingly important. The review aims to elucidate the diagnostic accuracy of AI algorithms in screening for all ophthalmic conditions in patient care settings that involve digital imaging modalities, using the reference standa...
Preprint
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The bayesTFR package for R provides a set of functions to produce probabilistic projections of the total fertility rates (TFR) for all countries, and is widely used, including as part of the basis for the UN's official population projections for all countries. Liu and Raftery (2020) extended the theoretical model by adding a layer that accounts for...
Article
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In this paper, we present the R package TrendTM dedicated to the trend estimation of high dimensional time series matrices. The main features of this package is the possibility to take into account different types of temporal structures on the data (none, smooth or periodic) and to select, according to the user's wishes, either the rank $k$ of the...
Article
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Although bulked segregant analysis (BSA) has been used extensively in genetic mapping, user-friendly tools which can integrate current algorithms for researchers with no background in bioinformatics are scarce. To address this issue, we developed an R package, PNGSeqR, which takes single-nucleotide polymorphism (SNP) markers from next-generation se...
Conference Paper
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This study was carried out to evaluate the effects of tannins supplementation to beef cattle diets on their nitrogen and energy metabolism through meta-analysis. A comprehensive literature search was performed, and for inclusion, studies should have the following standardized criteria: 1) The control treatment did not include any additive in the di...
Article
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Extended Abstract Introduction: As one of the greatest natural disasters, meteorological drought has traditionally affected human life. Considering the fact that the consequences of drought and its socio-economic damages increase with increasing population, it is necessary to have an effective monitoring system to analyze the drought process and r...
Article
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Purpose Tumor heterogeneity, which is associated with poor outcomes, has not been exhibited in the University of California, Los Angeles, Integrated Staging System (UISS), and the Stage, Size, Grade and Necrosis (SSIGN) scores. Radiomics allows an in-depth characterization of heterogeneity across the tumor, but its incremental value to the existing...
Article
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The use of Organic Manures to meet the nutrient requirement of crops is likely to be an unavoidable practice in so many years for sustainable agriculture since it has been proven to improve soil's physical, chemical and biological properties. It has also been used widely to dispose of animal waste and reduce environmental pollution. This study eval...
Article
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We present a new R package PRECISION.array for assessing the performance of data normalization methods in connection with methods for sample classification. It includes two microRNA microarray datasets for the same set of tumor samples: a re-sampling-based algorithm for simulating additional paired datasets under various designs of sample-to-array...
Article
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Using Random Forest algorithms, this study aimed to investigate musculoskeletal discomforts among mining truck drivers considering human vibration and awkward body posture. The study was conducted on 65 professional male drivers of mining trucks. The Cornell questionnaire was used to determine musculoskeletal discomforts. Drivers' exposure to vibra...
Article
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Background: Imageology uses high-throughput and automatic computing methods to transform medical image data into quantitative data with feature space, and then makes accurate quantitative analysis, extracts features and builds models, which can intuitively observe the overall features of lesions and the surrounding tissues, and provide rich invisi...
Article
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Introduction: Antimicrobial resistance to specific antibacterial drugs in bacteria have led many drugs of choice ineffective against pathogens. Methecillin resistant S.aureus (MRSA) is one of the pathogens, which looses sensitivity to Methicillin. Methicillin has been considered as the drug of choice of choice to treat infections caused by β-lactam...
Method
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memice is a package with several functions to facilitate the estimation of marginal effects in linear and generalized linear models. It takes a model object (lm() or glm() objects) and a .mids object (a data object containing data multiply imputed by mice::mice()), estimates the marginal effects in each dataset within the .mids object, and pools th...
Article
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Objective: Cerebrospinal fluid (CSF) biomarkers add accuracy to the diagnostic workup of cognitive impairment by illustrating Alzheimer's disease (AD) pathology. However, there are no universally accepted cutoff values for the interpretation of AD biomarkers. The aim of this study is to determine the viability of a decision-tree method to analyse...
Article
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This research was done in Arsi-Bale Massif remnant vegetation of southeast Ethiopia to investigate vascular plant diversity and endemism in forest patch, riverine, and grazing land-use types. A total of 126 quadrats, each with 900 m2 (30 m × 30 m), were selected systematically along the altitudinal gradient. Shannon Weiner Diversity index and R Pac...
Article
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Background: Implementation of interventions for the prevention of mother-to-child transmission (PMTCT) of HIV in low- and middle-income countries, faces several barriers including health systems challenges such as health providers' knowledge and use of recommended guidelines. This study assessed PMTCT providers' knowledge of national PMTCT guideli...
Article
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Background Enhanced recovery after surgery (ERAS), a new clinical surgical concept, has been applied in many surgical disciplines with good clinical results for the past 20 years. Bibliometric analysis is an effective method to quantitatively evaluate the academic productivity. This report aimed to perform a scientometric analysis of the ERAS resea...
Article
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Phenotyping has advanced with the application of high throughput phenotyping techniques such automated imaging. This has led to derivation of large quantities of high dimensional phenotypic data that could not have been achieved using manual phenotyping in a single run. Hence, the need for parallel development of statistical techniques that can app...
Technical Report
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Fits flexible parametric Accelerated Hazards (AH) regression models in overall and relative survival frameworks with 13 distinct baseline distributions. The AH Model can also be applied to analyze lifetime data with crossed survival curves. Any user-defined parametric distribution can be fitted, given at least an R function defining the cumulative...
Article
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GWR is a popular approach for investigating the spatial variation in relationships between response and predictor variables, and critically for investigating and understanding process spatial heterogeneity. The geographically weighted (GW) framework is increasingly used to accommodate different types of models and analyses, reflecting a wider desir...
Article
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Physiological signals (e.g., heart rate, skin conductance) that were traditionally studied in neuroscientific laboratory research are currently being used in numerous real-life studies using wearable technology. Physiological signals obtained with wearables seem to offer great potential for continuous monitoring and providing biofeedback in clinica...