Fits Parametric Frailty Models by maximum marginal likelihood. Possible baseline hazards: exponential, Weibull, inverse Weibull (Fréchet), Gompertz, lognormal, log-skew-normal, and loglogistic. Possible Frailty distributions: gamma, positive stable, inverse Gaussian and lognormal.

User-friendly functions which parse output of command line programs used to query Slurm. Morris A. Jette and Tim Wickberg (2023) <doi:10.1007/978-3-031-43943-8_1> describe Slurm in detail.

Implementation of the Conditional Least Square (CLS) estimates and its covariance matrix for the first-order spatial integer-valued autoregressive model (SINAR(1,1)) proposed by Ghodsi (2012) <doi:10.1080/03610926.2011.560739>.

An implementation of interpreted string literals. Based on the glue package by Hester & Bryan (2024) <doi:10.32614/CRAN.package.glue> but with a focus on efficiency and simplicity at a cost of flexibility.

Sparse arrays interpreted as multivariate polynomials. Uses disordR discipline (Hankin, 2022, <doi:10.48550/ARXIV.2210.03856>). To cite the package in publications please use Hankin (2022) <doi:10.48550/ARXIV.2210.10848>.

Risk ratios and risk differences are estimated using regression models that allow for binary, categorical, and continuous exposures and confounders. Implemented are marginal standardization after fitting logistic models (g-computation) with delta-method and bootstrap standard errors, Miettinen's case-duplication approach (Schouten et al. 1993, <doi:10.1002/sim.4780121808>), log-binomial (Poisson) models with empirical variance (Zou 2004, <doi:10.1093/aje/kwh090>), binomial models with starting values from Poisson models (Spiegelman and Hertzmark 2005, <doi:10.1093/aje/kwi188>), and others.

The goal of anpan is to consolidate statistical methods for strain analysis. This includes automated filtering of metagenomic functional profiles, testing genetic elements for association with outcomes, phylogenetic association testing, and pathway-level random effects models.

This package contains functions for the SCENT algorithm. SCENT uses single-cell multimodal data and links ATAC-seq peaks to their target genes by modeling association between chromatin accessibility and gene expression across individual single cells.

The vegan package provides tools for descriptive community ecology. It has most basic functions of diversity analysis, community ordination and dissimilarity analysis. Most of its multivariate tools can be used for other data types as well.

Using bayesian methods to estimate correlation matrices assuming that they can be written and estimated as block diagonal matrices. These block diagonal matrices are determined using shrinkage parameters that values below this parameter to zero.

Fits bootstrap with univariate spatial regression models using Bootstrap for Rapid Inference on Spatial Covariances (BRISC) for large datasets using nearest neighbor Gaussian processes detailed in Saha and Datta (2018) <doi:10.1002/sta4.184>.

Fit continuous-time correlated random walk models with time indexed covariates to animal telemetry data. The model is fit using the Kalman-filter on a state space version of the continuous-time stochastic movement process.

This package provides a system containing easy-to-use tools to compute the bioequivalence assessment in the univariate framework using the methods proposed in Boulaguiem et al. (2023) <doi:10.1101/2023.03.11.532179>.

This is an opinionated wrapper around the python-chess package. It allows users to read and write PGN files as well as create and explore game trees such as the ones seen in chess books.

Calculates predictions from generalized estimating equations and internally cross-validates them using the logarithmic, quadratic and spherical proper scoring rules; Kung-Yee Liang and Scott L. Zeger (1986) <doi:10.1093/biomet/73.1.13>.

Emulation of an application originally created by Paul Pukite. Computer Aided Rate Modeling and Simulation. Jan Pukite and Paul Pukite, (1998, ISBN 978-0-7803-3482), William J. Stewart, (1994, ISBN: 0-691-03699-3).

This package provides a SQLite database is designed to store all information of experiment-based data including metadata, experiment design, managements, phenotypic values and climate records. The dataset can be imported from an Excel file.

This package implements the probability mass function of, and random draws from, the Ewens distribution, a probability distribution over partitions of integer, as described in Ewens (1972) <doi:10.1016/0040-5809(72)90035-4>.

This package provides functions to read in the geometry format under the Neuroimaging Informatics Technology Initiative ('NIfTI'), called GIFTI <https://www.nitrc.org/projects/gifti/>. These files contain surfaces of brain imaging data.

Implementing generalized structured component analysis (GSCA) and its basic extensions, including constrained single and multiple group analysis, and second order latent variable modeling. For a comprehensive overview of GSCA, see Hwang & Takane (2014, ISBN: 9780367738754).

Processing of CSV files generated by HOBO weather stations and data loggers. The package automatically imports multiple HOBO data records, removes duplicate records, identifies impossible values, subsets user-defined time ranges, and summarizes environmental data.

This package provides tools for common operations on lists. Provided are short-cuts to operations like selecting and merging data stored in lists. The functions in this package are designed to be used with pipes.

Implementation of the LoTTA (Local Trimmed Taylor Approximation) model described in "Bayesian Regression Discontinuity Design with Unknown Cutoff" by Kowalska, van de Wiel, van der Pas (2024) <doi:10.48550/arXiv.2406.11585>.

Framework for merging and disambiguating event data based on spatiotemporal co-occurrence and secondary event characteristics. It can account for intrinsic "fuzziness" in the coding of events, varying event taxonomies and different geo-precision codes.