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r-tmle
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Targeted maximum likelihood estimation of point treatment effects (Targeted Maximum Likelihood Learning, The International Journal of Biostatistics, 2(1), 2006. This version automatically estimates the additive treatment effect among the treated (ATT) and among the controls (ATC). The tmle() function calculates the adjusted marginal difference in mean outcome associated with a binary point treatment, for continuous or binary outcomes. Relative risk and odds ratio estimates are also reported for binary outcomes. Missingness in the outcome is allowed, but not in treatment assignment or baseline covariate values. The population mean is calculated when there is missingness, and no variation in the treatment assignment. The tmleMSM() function estimates the parameters of a marginal structural model for a binary point treatment effect. Effect estimation stratified by a binary mediating variable is also available. An ID argument can be used to identify repeated measures. Default settings call 'SuperLearner' to estimate the Q and g portions of the likelihood, unless values or a user-supplied regression function are passed in as arguments.
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2025-03-25 |
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r-tmisc
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Miscellaneous utility functions for data manipulation, data tidying, and working with gene expression data.
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2025-03-25 |
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r-tmaptools
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public |
Set of tools for reading and processing spatial data. The aim is to supply the workflow to create thematic maps. This package also facilitates 'tmap', the package for visualizing thematic maps.
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2025-03-25 |
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r-tmap
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public |
Thematic maps are geographical maps in which spatial data distributions are visualized. This package offers a flexible, layer-based, and easy to use approach to create thematic maps, such as choropleths and bubble maps.
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2025-03-25 |
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r-tinytiger
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Download geographic shapes from the United States Census Bureau TIGER/Line Shapefiles <https://www.census.gov/geographies/mapping-files/time-series/geo/tiger-line-file.html>. Functions support downloading and reading in geographic boundary data. All downloads can be set up with a cache to avoid multiple downloads. Data is available back to 2000 for most geographies.
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2025-03-25 |
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r-tinylabels
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public |
Assign, extract, or remove variable labels from R vectors. Lightweight and dependency-free.
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2025-03-25 |
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r-timetk
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public |
Easy visualization, wrangling, and feature engineering of time series data for forecasting and machine learning prediction. Consolidates and extends time series functionality from packages including 'dplyr', 'stats', 'xts', 'forecast', 'slider', 'padr', 'recipes', and 'rsample'.
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2025-03-25 |
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r-timeroc
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public |
Estimation of time-dependent ROC curve and area under time dependent ROC curve (AUC) in the presence of censored data, with or without competing risks. Confidence intervals of AUCs and tests for comparing AUCs of two rival markers measured on the same subjects can be computed, using the iid-representation of the AUC estimator. Plot functions for time-dependent ROC curves and AUC curves are provided. Time-dependent Positive Predictive Values (PPV) and Negative Predictive Values (NPV) can also be computed. See Blanche et al. (2013) <doi:10.1002/sim.5958> and references therein for the details of the methods implemented in the package.
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2025-03-25 |
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r-tigris
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Download TIGER/Line shapefiles from the United States Census Bureau (<https://www.census.gov/geographies/mapping-files/time-series/geo/tiger-line-file.html>) and load into R as 'sf' objects.
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2025-03-25 |
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r-tigerstats
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public |
A collection of data sets and functions that are useful in the teaching of statistics at an elementary level to students who may have little or no previous experience with the command line. The functions for elementary inferential procedures follow a uniform interface for user input. Some of the functions are instructional applets that can only be run on the R Studio integrated development environment with package 'manipulate' installed. Other instructional applets are Shiny apps that may be run locally. In teaching the package is used alongside of package 'mosaic', 'mosaicData' and 'abd', which are therefore listed as dependencies.
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2025-03-25 |
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r-tidytuesdayr
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'TidyTuesday' is a project by the 'R4DS Online Learning Community' in which they post a weekly dataset onto post a weekly dataset in a public data repository (<https://github.com/rfordatascience/tidytuesday>) for people to analyze and visualize. This package provides the tools to easily download this data and the description of the source.
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2025-03-25 |
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r-tidyterra
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public |
Extension of the 'tidyverse' for 'SpatRaster' and 'SpatVector' objects of the 'terra' package. It includes also new 'geom_' functions that provide a convenient way of visualizing 'terra' objects with 'ggplot2'.
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2025-03-25 |
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r-tidytree
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public |
Phylogenetic tree generally contains multiple components including node, edge, branch and associated data. 'tidytree' provides an approach to convert tree object to tidy data frame as well as provides tidy interfaces to manipulate tree data.
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2025-03-25 |
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r-tidytable
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public |
A tidy interface to 'data.table', giving users the speed of 'data.table' while using tidyverse-like syntax.
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2025-03-25 |
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r-tidysynth
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public |
A synthetic control offers a way of evaluating the effect of an intervention in comparative case studies. The package makes a number of improvements when implementing the method in R. These improvements allow users to inspect, visualize, and tune the synthetic control more easily. A key benefit of a tidy implementation is that the entire preparation process for building the synthetic control can be accomplished in a single pipe.
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2025-03-25 |
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r-tidyseurat
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public |
It creates an invisible layer that allow to see the 'Seurat' object as tibble and interact seamlessly with the tidyverse.
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2025-03-25 |
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r-tidysem
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public |
A tidy workflow for generating, estimating, reporting, and plotting structural equation models using 'lavaan', 'OpenMx', or 'Mplus'. Throughout this workflow, elements of syntax, results, and graphs are represented as 'tidy' data, making them easy to customize. Includes functionality to estimate latent class analyses.
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2025-03-25 |
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r-tidyrules
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Utility to convert text based summary of rule based models to a tidy dataframe (where each row represents a rule) with related metrics such as support, confidence and lift. Rule based models from these packages are supported: 'C5.0', 'rpart' and 'Cubist'.
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2025-03-25 |
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r-tidyrss
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With the objective of including data from RSS feeds into your analysis, 'tidyRSS' parses RSS, Atom and JSON feeds and returns a tidy data frame.
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2025-03-25 |
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r-tidyquant
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public |
Bringing business and financial analysis to the 'tidyverse'. The 'tidyquant' package provides a convenient wrapper to various 'xts', 'zoo', 'quantmod', 'TTR' and 'PerformanceAnalytics' package functions and returns the objects in the tidy 'tibble' format. The main advantage is being able to use quantitative functions with the 'tidyverse' functions including 'purrr', 'dplyr', 'tidyr', 'ggplot2', 'lubridate', etc. See the 'tidyquant' website for more information, documentation and examples.
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2025-03-25 |
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r-tidync
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public |
Tidy tools for 'NetCDF' data sources. Explore the contents of a 'NetCDF' source (file or URL) presented as variables organized by grid with a database-like interface. The hyper_filter() interactive function translates the filter value or index expressions to array-slicing form. No data is read until explicitly requested, as a data frame or list of arrays via hyper_tibble() or hyper_array().
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2025-03-25 |
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r-tidypredict
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public |
It parses a fitted 'R' model object, and returns a formula in 'Tidy Eval' code that calculates the predictions. It works with several databases back-ends because it leverages 'dplyr' and 'dbplyr' for the final 'SQL' translation of the algorithm. It currently supports lm(), glm(), randomForest(), ranger(), earth(), xgb.Booster.complete(), cubist(), and ctree() models.
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2025-03-25 |
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r-tidyposterior
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Bayesian analysis used here to answer the question: "when looking at resampling results, are the differences between models 'real'?" To answer this, a model can be created were the performance statistic is the resampling statistics (e.g. accuracy or RMSE). These values are explained by the model types. In doing this, we can get parameter estimates for each model's affect on performance and make statistical (and practical) comparisons between models. The methods included here are similar to Benavoli et al (2017) <https://jmlr.org/papers/v18/16-305.html>.
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2025-03-25 |
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r-tidymv
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public |
Provides functions for visualising generalised additive models and getting predicted values using tidy tools from the 'tidyverse' packages.
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2025-03-25 |
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r-tidymodels
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public |
The tidy modeling "verse" is a collection of packages for modeling and statistical analysis that share the underlying design philosophy, grammar, and data structures of the tidyverse.
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2025-03-25 |
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r-tidylpa
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public |
An interface to the 'mclust' package to easily carry out latent profile analysis ("LPA"). Provides functionality to estimate commonly-specified models. Follows a tidy approach, in that output is in the form of a data frame that can subsequently be computed on. Also has functions to interface to the commercial 'MPlus' software via the 'MplusAutomation' package.
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2025-03-25 |
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r-tidyjson
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public |
Turn complex 'JSON' data into tidy data frames.
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2025-03-25 |
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r-tidylog
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public |
Provides feedback about 'dplyr' and 'tidyr' operations.
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2025-03-25 |
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r-tidyfst
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public |
A toolkit of tidy data manipulation verbs with 'data.table' as the backend. Combining the merits of syntax elegance from 'dplyr' and computing performance from 'data.table', 'tidyfst' intends to provide users with state-of-the-art data manipulation tools with least pain. This package is an extension of 'data.table'. While enjoying a tidy syntax, it also wraps combinations of efficient functions to facilitate frequently-used data operations.
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2025-03-25 |
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r-tidygeocoder
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public |
An intuitive interface for getting data from geocoding services.
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2025-03-25 |
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r-tidydr
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public |
Dimensionality reduction (DR) is widely used in many domain for analyzing and visualizing high-dimensional data. 'tidydr' provides uniform output and is compatible with multiple methods, including 'prcomp', 'mds', 'Rtsne'. etc.
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2025-03-25 |
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r-tidycmprsk
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Provides an intuitive interface for working with the competing risk endpoints. The package wraps the 'cmprsk' package, and exports functions for univariate cumulative incidence estimates and competing risk regression. Methods follow those introduced in Fine and Gray (1999) <doi:10.1002/sim.7501>.
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2025-03-25 |
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r-tidybayes
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public |
Compose data for and extract, manipulate, and visualize posterior draws from Bayesian models ('JAGS', 'Stan', 'rstanarm', 'brms', 'MCMCglmm', 'coda', ...) in a tidy data format. Functions are provided to help extract tidy data frames of draws from Bayesian models and that generate point summaries and intervals in a tidy format. In addition, 'ggplot2' 'geoms' and 'stats' are provided for common visualization primitives like points with multiple uncertainty intervals, eye plots (intervals plus densities), and fit curves with multiple, arbitrary uncertainty bands.
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2025-03-25 |
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r-tidyclust
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public |
A common interface to specifying clustering models, in the same style as 'parsnip'. Creates unified interface across different functions and computational engines.
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2025-03-25 |
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r-tidycensus
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public |
An integrated R interface to several United States Census Bureau APIs (<https://www.census.gov/data/developers/data-sets.html>) and the US Census Bureau's geographic boundary files. Allows R users to return Census and ACS data as tidyverse-ready data frames, and optionally returns a list-column with feature geometry for mapping and spatial analysis.
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2025-03-25 |
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r-thematic
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public |
Theme 'ggplot2', 'lattice', and 'base' graphics based on a few choices, including foreground color, background color, accent color, and font family. Fonts that aren't available on the system, but are available via download on 'Google Fonts', can be automatically downloaded, cached, and registered for use with the 'showtext' and 'ragg' packages.
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2025-03-25 |
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r-theft
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public |
Consolidates and calculates different sets of time-series features from multiple 'R' and 'Python' packages including 'Rcatch22' Henderson, T. (2021) <doi:10.5281/zenodo.5546815>, 'feasts' O'Hara-Wild, M., Hyndman, R., and Wang, E. (2021) <https://CRAN.R-project.org/package=feasts>, 'tsfeatures' Hyndman, R., Kang, Y., Montero-Manso, P., Talagala, T., Wang, E., Yang, Y., and O'Hara-Wild, M. (2020) <https://CRAN.R-project.org/package=tsfeatures>, 'tsfresh' Christ, M., Braun, N., Neuffer, J., and Kempa-Liehr A.W. (2018) <doi:10.1016/j.neucom.2018.03.067>, 'TSFEL' Barandas, M., et al. (2020) <doi:10.1016/j.softx.2020.100456>, and 'Kats' Facebook Infrastructure Data Science (2021) <https://facebookresearch.github.io/Kats/>. Provides a standardised workflow from feature calculation to feature processing, machine learning classification procedures, and the production of statistical graphics.
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2025-03-25 |
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r-thief
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public |
Methods and tools for generating forecasts at different temporal frequencies using a hierarchical time series approach.
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2025-03-25 |
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r-themis
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public |
A dataset with an uneven number of cases in each class is said to be unbalanced. Many models produce a subpar performance on unbalanced datasets. A dataset can be balanced by increasing the number of minority cases using SMOTE 2011 <arXiv:1106.1813>, BorderlineSMOTE 2005 <doi:10.1007/11538059_91> and ADASYN 2008 <https://ieeexplore.ieee.org/document/4633969>. Or by decreasing the number of majority cases using NearMiss 2003 <https://www.site.uottawa.ca/~nat/Workshop2003/jzhang.pdf> or Tomek link removal 1976 <https://ieeexplore.ieee.org/document/4309452>.
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2025-03-25 |
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r-tfisher
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We provide the cumulative distribution function (CDF), quantile, and statistical power calculator for a collection of thresholding Fisher's p-value combination methods, including Fisher's p-value combination method, truncated product method and, in particular, soft-thresholding Fisher's p-value combination method which is proven to be optimal in some context of signal detection. The p-value calculator for the omnibus version of these tests are also included. For reference, please see Hong Zhang and Zheyang Wu. "TFisher Tests: Optimal and Adaptive Thresholding for Combining p-Values", submitted.
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2025-03-25 |
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r-tfplot
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Utilities for simple manipulation and quick plotting of time series data. These utilities use the 'tframe' package which provides a programming kernel for time series. Extensions to 'tframe' provided in 'tframePlus' can also be used. See the Guide vignette for examples.
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2025-03-25 |
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r-textstem
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Tools that stem and lemmatize text. Stemming is a process that removes endings such as affixes. Lemmatization is the process of grouping inflected forms together as a single base form.
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2025-03-25 |
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r-textclean
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public |
Tools to clean and process text. Tools are geared at checking for substrings that are not optimal for analysis and replacing or removing them (normalizing) with more analysis friendly substrings (see Sproat, Black, Chen, Kumar, Ostendorf, & Richards (2001) <doi:10.1006/csla.2001.0169>) or extracting them into new variables. For example, emoticons are often used in text but not always easily handled by analysis algorithms. The replace_emoticon() function replaces emoticons with word equivalents.
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2025-03-25 |
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r-textdata
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Provides a framework to download, parse, and store text datasets on the disk and load them when needed. Includes various sentiment lexicons and labeled text data sets for classification and analysis.
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2025-03-25 |
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r-textcat
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Text categorization based on n-grams.
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2025-03-25 |
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r-text
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Link R with Transformers from Hugging Face to transform text variables to word embeddings; where the word embeddings are used to statistically test the mean difference between set of texts, compute semantic similarity scores between texts, predict numerical variables, and visual statistically significant words according to various dimensions etc. For more information see <https://www.r-text.org>.
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2025-03-25 |
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r-term
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Creates, manipulates, queries and repairs vectors of parameter terms. Parameter terms are the labels used to reference values in vectors, matrices and arrays. They represent the names in coefficient tables and the column names in 'mcmc' and 'mcmc.list' objects.
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2025-03-25 |
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r-tdbook
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The companion package that provides all the datasets used in the book "Data Integration, Manipulation and Visualization of Phylogenetic Trees" by Guangchuang Yu (2022, ISBN:9781032233574).
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2025-03-25 |
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r-tcpl
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public |
A set of tools for processing and modeling high-throughput and high-content chemical screening data. The package was developed for the the chemical screening data generated by the US EPA ToxCast program, but can be used for diverse chemical screening efforts.
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2025-03-25 |
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r-tcplfit2
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Performs the basic concentration response curve fitting used in the 'tcpl' package. It is a substitute for the original tcplFit() function (and sub-functions) and allows a wider variety of concentration-response models. All of the models included in the 'BMDExpress' package are now part of this package, and the output includes a calculation of the bmd (Benchmark Dose or concentration) value.
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2025-03-25 |
