This package creates text, LaTeX', Markdown, or Bootstrap-styled HTML-formatted odds ratio tables with confidence intervals for multiple logistic regression models.

This package performs analysis of regression in simple designs with quantitative treatments, including mixed models and non linear models.

Calculates exact tests and confidence intervals for one-sample binomial and one- or two-sample Poisson cases (see Fay (2010) <doi:10.32614/rj-2010-008>).

This package provides a collection of functions for microbial ecology and other applications of genomics and metagenomics. Companion package for the Enveomics Collection (Rodriguez-R, L.M. and Konstantinidis, K.T., 2016 <DOI:10.7287/peerj.preprints.1900v1>).

This package provides a small group of functions to read in a data dictionary and the corresponding data table from Excel and to automate the cleaning, re-coding and creation of simple calculated variables. This package was designed to be a companion to the macro-enabled Excel template available on the GitHub site, but works with any similarly-formatted Excel data.

Analytical methods to locate and characterise ecotones, ecosystems and environmental patchiness along ecological gradients. Methods are implemented for isolated sampling or for space/time series. It includes Detrended Correspondence Analysis (Hill & Gauch (1980) <doi:10.1007/BF00048870>), fuzzy clustering (De Cáceres et al. (2010) <doi:10.1080/01621459.1963.10500845>), biodiversity indices (Jost (2006) <doi:10.1111/j.2006.0030-1299.14714.x>), and network analyses (Epskamp et al. (2012) <doi:10.18637/jss.v048.i04>) - as well as tools to explore the number of clusters in the data. Functions to produce synthetic ecological datasets are also provided.

This package contains match results from seven European men's football leagues, namely Premier League (England), Ligue 1 (France), Bundesliga (Germany), Serie A (Italy), Primera Division (Spain), Eredivisie (The Netherlands), Super Lig (Turkey). Includes Seasons 2010/2011 until 2019/2020 and a set of interesting covariates. Can be used all purposes.

Support functions for R-based EQUAL-STATS software which automatically classifies the data and performs appropriate statistical tests. EQUAL-STATS software is a shiny application with an user-friendly interface to perform complex statistical analysis. Gurusamy,K (2024)<doi:10.5281/zenodo.13354162>.

This package provides a user friendly, easy to understand way of doing event history regression for marginal estimands of interest, including the cumulative incidence and the restricted mean survival, using the pseudo observation framework for estimation. For a review of the methodology, see Andersen and Pohar Perme (2010) <doi:10.1177/0962280209105020> or Sachs and Gabriel (2022) <doi:10.18637/jss.v102.i09>. The interface uses the well known formulation of a generalized linear model and allows for features including plotting of residuals, the use of sampling weights, and corrected variance estimation.

Use emailjs API easily in R'. This package is not official. <https://www.emailjs.com/docs/rest-api/send/>. You can send e-mail with emailjs with function, based on httr'. You can also make a shiny ui and server function. It can be used for making feedback form, inquiry, and so on.

This package implements the Enhanced Portfolio Optimization (EPO) method as described in Pedersen, Babu and Levine (2021) <doi:10.2139/ssrn.3530390>.

Allows R users to retrieve and parse data from the Urban Institute's Education Data API <https://educationdata.urban.org/> into a data.frame for analysis.

Conducts sensitivity analyses for unmeasured confounding, selection bias, and measurement error (individually or in combination; VanderWeele & Ding (2017) <doi:10.7326/M16-2607>; Smith & VanderWeele (2019) <doi:10.1097/EDE.0000000000001032>; VanderWeele & Li (2019) <doi:10.1093/aje/kwz133>; Smith, Mathur, & VanderWeele (2021) <doi:10.1097/EDE.0000000000001380>). Also conducts sensitivity analyses for unmeasured confounding in meta-analyses (Mathur & VanderWeele (2020a) <doi:10.1080/01621459.2018.1529598>; Mathur & VanderWeele (2020b) <doi:10.1097/EDE.0000000000001180>) and for additive measures of effect modification (Mathur et al., <doi:10.1093/ije/dyac073>).

Simulates the soil water balance (soil moisture, evapotranspiration, leakage and runoff), rainfall series by using the marked Poisson process and the vegetation growth through the normalized difference vegetation index (NDVI). Please see Souza et al. (2016) <doi:10.1002/hyp.10953>.

This dataset contains population estimates of all European cities with at least 10,000 inhabitants during the period 1500-1800. These data are adapted from Jan De Vries, "European Urbanization, 1500-1800" (1984).

Process and analyze electronic health record (EHR) data. The EHR package provides modules to perform diverse medication-related studies using data from EHR databases. Especially, the package includes modules to perform pharmacokinetic/pharmacodynamic (PK/PD) analyses using EHRs, as outlined in Choi, Beck, McNeer, Weeks, Williams, James, Niu, Abou-Khalil, Birdwell, Roden, Stein, Bejan, Denny, and Van Driest (2020) <doi:10.1002/cpt.1787>. Additional modules will be added in future. In addition, this package provides various functions useful to perform Phenome Wide Association Study (PheWAS) to explore associations between drug exposure and phenotypes obtained from EHR data, as outlined in Choi, Carroll, Beck, Mosley, Roden, Denny, and Van Driest (2018) <doi:10.1093/bioinformatics/bty306>.

Makes difficult operations easy. Includes these types of functions: shorthand, type conversion, data wrangling, and work flow. Also includes some helpful data objects: NA strings, U.S. state list, color blind charting colors. Built and shared by Oliver Wyman Actuarial Consulting. Accepting proposed contributions through GitHub.

This package provides functions for signal detection and identification designed for Event-Related Potentials (ERP) data in a linear model framework. The functional F-test proposed in Causeur, Sheu, Perthame, Rufini (2018, submitted) for analysis of variance issues in ERP designs is implemented for signal detection (tests for mean difference among groups of curves in One-way ANOVA designs for example). Once an experimental effect is declared significant, identification of significant intervals is achieved by the multiple testing procedures reviewed and compared in Sheu, Perthame, Lee and Causeur (2016, <DOI:10.1214/15-AOAS888>). Some of the methods gathered in the package are the classical FDR- and FWER-controlling procedures, also available using function p.adjust. The package also implements the Guthrie-Buchwald procedure (Guthrie and Buchwald, 1991 <DOI:10.1111/j.1469-8986.1991.tb00417.x>), which accounts for the auto-correlation among t-tests to control erroneous detection of short intervals. The Adaptive Factor-Adjustment method is an extension of the method described in Causeur, Chu, Hsieh and Sheu (2012, <DOI:10.3758/s13428-012-0230-0>). It assumes a factor model for the correlation among tests and combines adaptively the estimation of the signal and the updating of the dependence modelling (see Sheu et al., 2016, <DOI:10.1214/15-AOAS888> for further details).

This package provides functions for treatment effect estimation, hypothesis testing, and future study design for settings where the surrogate is used in place of the primary outcome for individuals for whom the surrogate is valid, and the primary outcome is purposefully measured in the remaining patients. More details are available in: Knowlton, R., Parast, L. (2024) ``Efficient Testing Using Surrogate Information," Biometrical Journal, 67(6): e70086, <doi:10.1002/bimj.70086>. A tutorial for this package can be found at <https://www.laylaparast.com/etsi>.

Computes alpha and beta diversity metrics using concurrent C threads. Metrics include UniFrac', Faith's phylogenetic diversity, Bray-Curtis dissimilarity, Shannon diversity index, and many others. Also parses newick trees into phylo objects and rarefies feature tables.

Extension of testthat package to make unit tests on empirical distributions of estimators and functions for diagnostics of their finite-sample performance.

Automatic generation of quizzes or individual questions for learnr tutorials based on R/exams exercises.

This package provides a system for importing electrophysiological signal, based on the Waveform Database (WFDB) software package, written by Moody et al 2022 <doi:10.13026/gjvw-1m31>. A R-based system to utilize WFDB functions for reading and writing signal data, as well as functions for visualization and analysis are provided. A stable and broadly compatible class for working with signal data, supporting the reading in of cardiac electrophysiological files such as intracardiac electrograms, is introduced.

Comparative analysis of continuous traits influencing discrete states, and utility tools to facilitate comparative analyses. Implementations of ABBA/BABA type statistics to test for introgression in genomic data. Wright-Fisher, phylogenetic tree, and statistical distribution Shiny interactive simulations for use in teaching.