Keyword Assisted Topic Models

Fits keyword assisted topic models (keyATM) using collapsed Gibbs samplers. The keyATM combines the latent dirichlet allocation (LDA) models with a small number of keywords selected by researchers in order to improve the interpretability and topic classification of the LDA. The keyATM can also incorporate covariates and directly model time trends. The keyATM is proposed in Eshima, Imai, and Sasaki (2024) .

A Toolbox for Writing Pretty Papers and Reports

A toolbox for writing 'knitr', 'Sweave' or other 'LaTeX'- or 'markdown'-based reports and to prettify the output of various estimated models.

Shared Memory Multithreading

This project extends 'R' with a mechanism for efficient parallel data access by utilizing 'C++' shared memory. Large data objects can be accessed and manipulated directly from 'R' without redundant copying, providing both speed and memory efficiency.

Normalised Prediction Distribution Errors for Nonlinear Mixed-Effect Models

Provides routines to compute normalised prediction distribution errors, a metric designed to evaluate non-linear mixed effect models such as those used in pharmacokinetics and pharmacodynamics.

Auto-Adaptive Parentage Inference Software Tolerant to Missing Parents

Parentage assignment package. Parentage assignment is performed based on observed average Mendelian transmission probability distributions or Exclusion. The main functions of this package are the function APIS_2n(), APIS_3n() and launch_APIShiny(), which perform parentage assignment.

Provides Progress Bars in 'knitr'

Provides a progress bar similar to 'dplyr' that can write progress out to a variety of locations, including stdout(), stderr(), or from file(). Useful when using 'knitr' or 'rmarkdown', and you still want to see progress of calculations in the terminal.

Extensions of 'dplyr' and 'fuzzyjoin' Join Functions

We extend 'dplyr' and 'fuzzyjoin' join functions with features to preprocess the data, apply various data checks, and deal with conflicting columns.

Vectorised Nested if-else Statements Similar to CASE WHEN in 'SQL'

Functions for vectorised conditional recoding of variables. case_when() enables you to vectorise multiple if and else statements (like 'CASE WHEN' in 'SQL'). if_else() is a stricter and more predictable version of ifelse() in 'base' that preserves attributes. These functions are forked from 'dplyr' with all package dependencies removed and behave identically to the originals.

Examples using 'RcppClassic' to Interface R and C++

The 'Rcpp' package contains a C++ library that facilitates the integration of R and C++ in various ways via a rich API. This API was preceded by an earlier version which has been deprecated since 2010 (but is still supported to provide backwards compatibility in the package 'RcppClassic'). This package 'RcppClassicExamples' provides usage examples for the older, deprecated API. There is also a corresponding package 'RcppExamples' with examples for the newer, current API which we strongly recommend as the basis for all new development.

Bayesian Inference for the Multivariate Skew-t Model

Estimates the multivariate skew-t and nested models, as described in the articles Liseo, B., Parisi, A. (2013). Bayesian inference for the multivariate skew-normal model: a population Monte Carlo approach. Comput. Statist. Data Anal. and in Parisi, A., Liseo, B. (2017). Objective Bayesian analysis for the multivariate skew-t model. Statistical Methods & Applications .