Two hundred five packages made it to CRAN in May, but seven were removed before this post went to print. Here are my “Top40” picks in ten categories: Computational Methods, Data, Genomics, Machine Learning, Medicine, Science, Statistics, Time Series, Utilities, and Visualization.
TriDimRegression v22.214.171.124: Provides functions to fit 2D and 3D transformations using Stan which return posterior distributed for fitted parameters. There are vignettes on Transformation Matrices, Eye Gaze Mapping, and Comparing Faces. See README to get started.
artemis v1.0.7: Provides a modeling framework for the design and analysis of experiments collecting environmental DNA. There is an Introduction and also vignettes on Modeling eDNA and qPCR Data and Simulating eDNA Data.
MAGEE v1.0.0: Provides functions to perform variant set-based main effect tests, gene-environment interaction tests, and joint tests for association, as proposed in Wang et al. (2020). See the vignette for details.
cjbart v0.1.0: Implements a tool for analyzing conjoint experiments using Bayesian Additive Regression Trees (BART), a machine learning method developed by Chipman & McCulloch (2010). See the vignette for examples.
afdx v1.1.1: Provides functions to estimate diagnosis performance (Sensitivity, Specificity, Positive predictive value, Negative predicted value) of a diagnostic test when there is no golden standard by estimating the attributable fraction using either a logitexponential model or a latent class model.
covidcast v0.4.2: Provides an interface to Delphi’s COVIDcast Epidata including tools for data access, maps and time series plotting, and basic signal processing, and a collection of numerous indicators relevant to the COVID-19 pandemic in the United States. There is a Getting Started Guide, and vignettes on Computing Signal Correlations, Combining Data Sources, Manipulating Multiple Signals, and Plotting and Mapping Signals.
goldilocks v0.3.0: Implements the Goldilocks adaptive trial design for a time to event outcome using a piecewise exponential model and conjugate Gamma prior distributions as described in Broglio et al. (2014). See the vignette for an example.
CopernicusDEM v1.0.1: Provides an interface to the Copernicus DEM Digital Elevation Model of the European Space Agency with 90 and 30 meters resolution using the AWS CLI command line tool. See the vignette for an example.
nimbleCarbon v0.1.2: Provides functions and a custom probability distribution for Bayesian analyses of radiocarbon dates within the
nimble modeling framework, including a suite of functions for prior and posterior predictive checks for demographic inference as described in Crema & Shoda (2021). See the Introduction.
div v0.3.1: Provides functions to facilitate the analysis of teams in a corporate setting, assess the diversity per grade and job, search for bias and also provides methods to simulate the effects of bias. See De Brouwer (2021) and De Brouwer (2020) for background. Look here to get started.
HotellingEllipse v0.1.1: Provides functions to compute the semi-axes lengths and coordinate points of Hotelling ellipse. See Bro & Smilde (2014) and Brenton (2016) for background. Look here and at the vignette for examples.
Rage v1.0.0: Provides functions for calculating life history metrics using matrix population models (MPMs) as described in Jones et al. (2021). There is a Getting Started Guide and vignettes on Vital Rates, Life History Traits, Deriving Age, and Ternary Plots.
gsignal v0.3-2: Implements the Ovtave signal package which provides a variety of signal processing tools, such as signal generation and measurement, correlation and convolution, filtering, filter design, filter analysis and conversion, power spectrum analysis, system identification, decimation and sample rate change, and windowing. See the vignette for an introduction.
legion v0.1.0 Provides functions for implementing multivariate state space models such as Vector Exponential Smoothing and Vector Error-Trend-Seasonal models, for time series analysis and forecasting as described in de Silva et al. (2010) There is a Function Overview and vignettes on Vector ES and Vector ETS.
parsermd v0.1.2: Implements formal grammar and parser for R Markdown documents using the Boost Spirit X3 library. It also includes a collection of high level functions for working with the resulting abstract syntax tree. There is a Getting Started Guide and a vignette on Rmd Templates.
riskmetric v0.1.0: Provides facilities for assessing R packages against a number of metrics to help quantify their robustness. Look here for background on the package and here for background on the R Consortium, R Validation Hub project. There is a Quick Start Guide and a vignette on Extending riskmetric.
ggseg v1.6.3: Implements a
ggplot geom for plotting brain atlases using simple features. The largest component of the package is the data for two built-in atlases. See Mowinckel & Vidal-Piñero (2020) for background. There is an Introduction along with vignettes on external data, Freesurfer files, using atlases.
ichimoku v0.2.0: Implements Ichimoku Kinko Hyo, also commonly known as cloud charts, including static and interactive visualizations with tools for creating, backtesting and developing quantitative ichimoku strategies. There is a Reference and a vignette on Strategies.
liminal v0.1.2: Provides functions for composing interactive visualizations and creating linked interactive graphics for exploratory high-dimensional data analysis. See Lee et al. (2020) for background. There is a vignette on Exploring Non-linear Embeddings and another on the the geometry of Parameter Space.
mipplot v0.3.1: Provides generic functions to produce area, bar, box, and line plots following Integrated Assessment Modeling Consortium (IAMC) submission format in order to visualize climate migration scenarios. See the vignette for first steps.