Takes in vivo toxicokinetic concentration-time data and fits parameters of 1-compartment and 2-compartment models for each chemical. These methods are described in detail in "Informatics for Toxicokinetics" (2025).

This package contains tools for instrumental variables estimation. Currently, non-parametric bounds, two-stage estimation and G-estimation are implemented. Balke, A. and Pearl, J. (1997) <doi:10.2307/2965583>, Vansteelandt S., Bowden J., Babanezhad M., Goetghebeur E. (2011) <doi:10.1214/11-STS360>.

This package provides an R version of the InterVA5 software (<http://www.byass.uk/interva/>) for coding cause of death from verbal autopsies. It also provides simple graphical representation of individual and population level statistics.

Compute distributional quantities for an Integrated Gamma (IG) or Integrated Gamma Limit (IGL) copula, such as a cdf and density. Compute corresponding conditional quantities such as the cdf and quantiles. Generate data from an IG or IGL copula. See the vignette for formulas, or for a derivation, see Coia, V (2017) "Forecasting of Nonlinear Extreme Quantiles Using Copula Models." PhD Dissertation, The University of British Columbia.

This package provides user tokens for ICES web services that require authentication and authorization. Web services covered by this package are ICES VMS database, the ICES DATSU web services, and the ICES SharePoint site <https://www.ices.dk/data/tools/Pages/WebServices.aspx>.

Reverse engineer a regular expression pattern for the characters contained in an R object. Individual characters can be categorised into digits, letters, punctuation or spaces and encoded into run-lengths. This can be used to summarise the structure of a dataset or identify non-standard entries. Many non-character inputs such as numeric vectors and data frames are supported.

Implementation of methods Extremum Surface Estimator (ESE) and Extremum Distance Estimator (EDE) to identify the inflection point of a curve . Christopoulos, DT (2014) <doi:10.48550/arXiv.1206.5478> . Christopoulos, DT (2016) <https://demovtu.veltech.edu.in/wp-content/uploads/2016/04/Paper-04-2016.pdf> . Christopoulos, DT (2016) <doi:10.2139/ssrn.3043076> .

This package provides methods to evaluate predictive performance of models that estimate risks under hypothetical intervention scenarios (interventional/causal/counterfactual predictions) with observational data subject to treatment-outcome confounding. Inverse probability of treatment weighting (IPTW) is used to construct a pseudopopulation in which all individuals receive a specified intervention, enabling assessment of agreement between predicted risks under the intervention and observed outcomes in the pseudo-population corresponding to that intervention. Package supports binary and time-to-event outcomes under binary interventions made at a single time point. Performance measures supported are AUC (Area Under the receiving operating characteristic Curve), Brier score, observed-expected ratio, and calibration plots. Methods implemented in this package are based on work by Keogh and Van Geloven (2024) <DOI:10.1097/EDE.0000000000001713>.

This package provides tools to analyze point patterns in space occurring over planar network structures derived from graph-related intensity measures for undirected, directed, and mixed networks. This package is based on the following research: Eckardt and Mateu (2018) <doi:10.1080/10618600.2017.1391695>. Eckardt and Mateu (2021) <doi:10.1007/s11749-020-00720-4>.

As a sequel to iNEXT', the iNEXT.beta3D package provides functions to compute standardized taxonomic, phylogenetic, and functional diversity (3D) estimates with a common sample size (for alpha and gamma diversity) or sample coverage (for alpha, beta, gamma diversity as well as dissimilarity or turnover indices). Hill numbers and their generalizations are used to quantify 3D and to make multiplicative decomposition (gamma = alpha x beta). The package also features size- and coverage-based rarefaction and extrapolation sampling curves to facilitate rigorous comparison of beta diversity across datasets. See Chao et al. (2023) <doi:10.1002/ecm.1588> for more details.

Generates a Graphviz graph of the most significant 3-way interaction gains (i.e. conditional information gains) based on a provided discrete data frame. Various output formats are supported ('Graphviz', SVG, PNG, PDF, PS). For references, see the webpage of Aleks Jakulin <http://stat.columbia.edu/~jakulin/Int/>.

Calculates the RMS intrinsic and parameter-effects curvatures of a nonlinear regression model. The curvatures are global measures of assessing whether a model/data set combination is close-to-linear or not. See Bates and Watts (1980) <doi:10.1002/9780470316757> and Ratkowsky and Reddy (2017) <doi:10.1093/aesa/saw098> for details.

Paquete creado con el fin de facilitar el cálculo y distribución del à ndice Socio Material Territorial (ISMT), elaborado por el Observatorio de Ciudades UC. La metodologà a completa está disponible en "ISMT" (<https://ideocuc-ocuc.hub.arcgis.com/datasets/6ed956450cfc4293b7d90df3ce3474e4/about>) [Observatorio de Ciudades UC (2019)]. || Package created to facilitate the calculation and distribution of the Socio-Material Territorial Index by Observatorio de Ciudades UC. The full methodology is available at "ISMT" (<https://ideocuc-ocuc.hub.arcgis.com/datasets/6ed956450cfc4293b7d90df3ce3474e4/about>) [Observatorio de Ciudades UC (2019)].

This package implements the Interval-Censored Sequence Kernel Association (ICSKAT) test for testing the association between interval-censored time-to-event outcomes and groups of single nucleotide polymorphisms (SNPs). Interval-censored time-to-event data occur when the event time is not known exactly but can be deduced to fall within a given interval. For example, some medical conditions like bone mineral density deficiency are generally only diagnosed at clinical visits. If a patient goes for clinical checkups yearly and is diagnosed at, say, age 30, then the onset of the deficiency is only known to fall between the date of their age 29 checkup and the date of the age 30 checkup. Interval-censored data include right- and left-censored data as special cases. This package also implements the interval-censored Burden test and the ICSKATO test, which is the optimal combination of the ICSKAT and Burden tests. Please see the vignette for a quickstart guide. The paper describing these methods is " Inference for Set-Based Effects in Genetic Association Studies with Interval-Censored Outcomes" by Sun R, Zhu L, Li Y, Yasui Y, & Robison L (Biometrics 2023, <doi:10.1111/biom.13636>).

This package provides a variety of methods for estimating intrinsic dimension of data sets (i.e the manifold or Hausdorff dimension of the support of the distribution that generated the data) as reviewed in Johnsson, K. (2016, ISBN:978-91-7623-921-6) and Johnsson, K., Soneson, C. and Fontes, M. (2015) <doi:10.1109/TPAMI.2014.2343220>. Furthermore, to evaluate the performance of these estimators, functions for generating data sets with given intrinsic dimensions are provided.

Automates the identification and comparative evaluation of item-removal strategies in exploratory factor analysis, producing transparent summaries (explained variance, loading ranges, reliability) to support comfortable, reproducible decisions. The criteria are based on best practices and established heuristics (e.g., Costello & Osborne (2005) <doi:10.7275/jyj1-4868>, Howard (2016) <doi:10.1080/10447318.2015.1087664>). Includes flexible thresholds for factor loadings (min_loading) and cross-loading differences (loading_diff).

This package provides an up-to-date version of the InvaCost database (<doi:10.6084/m9.figshare.12668570>) in R, and several functions to analyse the costs of invasive alien species (<doi:10.1111/2041-210X.13929>).

The Importance Index (I.I.) can determine the loss and solution sources for a system in certain knowledge areas (e.g., agronomy), when production (e.g., fruits) is known (Demolin-Leite, 2021). Events (e.g., agricultural pest) can have different magnitudes (numerical measurements), frequencies, and distributions (aggregate, random, or regular) of event occurrence, and I.I. bases in this triplet (Demolin-Leite, 2021) <https://cjascience.com/index.php/CJAS/article/view/1009/1319>. Usually, the higher the magnitude and frequency of aggregated distribution, the greater the problem or the solution (e.g., natural enemies versus pests) for the system (Demolin-Leite, 2021). However, the final production of the system is not always known or is difficult to determine (e.g., degraded area recovery). A derivation of the I.I. is the percentage of Importance Index-Production Unknown (% I.I.-PU) that can detect the loss or solution sources, when production is unknown for the system (Demolin-Leite, 2024) <DOI:10.1590/1519-6984.253218>.

This package provides functions for evaluating and testing asset pricing models, including estimation and testing of factor risk premia, selection of "strong" risk factors (factors having nonzero population correlation with test asset returns), heteroskedasticity and autocorrelation robust covariance matrix estimation and testing for model misspecification and identification. The functions for estimating and testing factor risk premia implement the Fama-MachBeth (1973) <doi:10.1086/260061> two-pass approach, the misspecification-robust approaches of Kan-Robotti-Shanken (2013) <doi:10.1111/jofi.12035>, and the approaches based on tradable factor risk premia of Quaini-Trojani-Yuan (2023) <doi:10.2139/ssrn.4574683>. The functions for selecting the "strong" risk factors are based on the Oracle estimator of Quaini-Trojani-Yuan (2023) <doi:10.2139/ssrn.4574683> and the factor screening procedure of Gospodinov-Kan-Robotti (2014) <doi:10.2139/ssrn.2579821>. The functions for evaluating model misspecification implement the HJ model misspecification distance of Kan-Robotti (2008) <doi:10.1016/j.jempfin.2008.03.003>, which is a modification of the prominent Hansen-Jagannathan (1997) <doi:10.1111/j.1540-6261.1997.tb04813.x> distance. The functions for testing model identification specialize the Kleibergen-Paap (2006) <doi:10.1016/j.jeconom.2005.02.011> and the Chen-Fang (2019) <doi:10.1111/j.1540-6261.1997.tb04813.x> rank test to the regression coefficient matrix of test asset returns on risk factors. Finally, the function for heteroskedasticity and autocorrelation robust covariance estimation implements the Newey-West (1994) <doi:10.2307/2297912> covariance estimator.

Streamlines the creation of high-quality labels for insect pinning. By taking a dataset as input, the package allow to generate printable labels in LaTeX and PDF format, helping researchers and entomologists maintain accurate and standardized specimen records. Requires a compatible installation of pdflatex (e.g. <https://www.tug.org/texlive/>). For enhanced accessibility, the package includes a user-friendly shiny application (accessible online <https://nicolas-moiroux.shinyapps.io/InsectLabelR/>), which provides a graphical interface for generating labels without requiring programming expertise.

This minimalist package is designed to quickly score raw data outputted from an Implicit Association Test (IAT; Greenwald, McGhee, & Schwartz, 1998) <doi:10.1037/0022-3514.74.6.1464>. IAT scores are calculated as specified by Greenwald, Nosek, and Banaji (2003) <doi:10.1037/0022-3514.85.2.197>. Outputted values can be interpreted as effect sizes. The input function consists of three arguments. First, indicate the name of the dataset to be analyzed. This is the only required input. Second, indicate the number of trials in your entire IAT (the default is set to 219, which is typical for most IATs). Last, indicate whether congruent trials (e.g., flowers and pleasant) or incongruent trials (e.g., guns and pleasant) were presented first for this participant (the default is set to congruent). The script will tell you how long it took to run the code, the effect size for the participant, and whether that participant should be excluded based on the criteria outlined by Greenwald et al. (2003). Data files should consist of six columns organized in order as follows: Block (0-6), trial (0-19 for training blocks, 0-39 for test blocks), category (dependent on your IAT), the type of item within that category (dependent on your IAT), a dummy variable indicating whether the participant was correct or incorrect on that trial (0=correct, 1=incorrect), and the participantâ s reaction time (in milliseconds). Three sample datasets are included in this package (labeled IAT', TooFastIAT', and BriefIAT') to practice with.

Some functions for performing ICA, MICA, Group ICA, and Multilinear ICA are implemented. ICA, MICA/Group ICA, and Multilinear ICA extract statistically independent components from single matrix, multiple matrices, and single tensor, respectively. For the details of these methods, see the reference section of GitHub README.md <https://github.com/rikenbit/iTensor>.

This package implements a variety of nonparametric and parametric methods that are commonly used when the data set is a mixture of paired observations and independent samples. The package also calculates and returns values of different tests with their corresponding p-values. Bhoj, D. S. (1991) <doi:10.1002/bimj.4710330108> "Testing equality of means in the presence of correlation and missing data". Dubnicka, S. R., Blair, R. C., and Hettmansperger, T. P. (2002) <doi:10.22237/jmasm/1020254460> "Rank-based procedures for mixed paired and two-sample designs". Einsporn, R. L. and Habtzghi, D. (2013) <https://pdfs.semanticscholar.org/89a3/90bafeb2bc41ed4414533cfd5ab84a6b54b6.pdf> "Combining paired and two-sample data using a permutation test". Ekbohm, G. (1976) <doi:10.1093/biomet/63.2.299> "On comparing means in the paired case with incomplete data on both responses". Lin, P. E. and Stivers, L. E. (1974) <doi:10.1093/biomet/61.2.325> On difference of means with incomplete data". Maritz, J. S. (1995) <doi:10.1111/j.1467-842x.1995.tb00649.x> "A permutation paired test allowing for missing values".

When you want to install R package or download file from GitHub, but you can't access GitHub, this package helps you install R packages or download file from GitHub via the proxy website <https://gh-proxy.com/> or <https://ghfast.top/>, which is in real-time sync with GitHub.