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r-ggdensity
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public |
The 'ggplot2' package provides simple functions for visualizing contours of 2-d kernel density estimates. 'ggdensity' implements several additional density estimators as well as more interpretable visualizations based on highest density regions instead of the traditional height of the estimated density surface.
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2025-09-24 |
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r-ggdark
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public |
Activate dark mode on your favorite 'ggplot2' theme with dark_mode() or use the dark versions of 'ggplot2' themes, including dark_theme_gray(), dark_theme_minimal(), and others. When a dark theme is applied, all geom color and geom fill defaults are changed to make them visible against a dark background. To restore the defaults to their original values, use invert_geom_defaults().
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2025-09-24 |
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nomic
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public |
The official Nomic python client.
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2025-09-24 |
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types-docutils
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public |
Typing stubs for docutils
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2025-09-24 |
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r-bmp
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public |
Reads Windows BMP format images. Currently limited to 8 bit greyscale images and 24,32 bit (A)RGB images. Pure R implementation without external dependencies.
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2025-09-24 |
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r-log4r
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public |
The log4r package is meant to provide a fast, lightweight, object-oriented approach to logging in R based on the widely-emulated 'log4j' system and etymology.
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2025-09-24 |
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r-datefixr
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public |
There are many different formats dates are commonly represented with: the order of day, month, or year can differ, different separators ("-", "/", or whitespace) can be used, months can be numerical, names, or abbreviations and year given as two digits or four. 'datefixR' takes dates in all these different formats and converts them to R's built-in date class. If 'datefixR' cannot standardize a date, such as because it is too malformed, then the user is told which date cannot be standardized and the corresponding ID for the row. 'datefixR' also allows the imputation of missing days and months with user-controlled behavior.
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2025-09-24 |
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r-recordlinkage
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public |
Provides functions for linking and deduplicating data sets. Methods based on a stochastic approach are implemented as well as classification algorithms from the machine learning domain. For details, see our paper "The RecordLinkage Package: Detecting Errors in Data" Sariyar M / Borg A (2010) <doi:10.32614/RJ-2010-017>.
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2025-09-24 |
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r-statnet
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public |
Statnet is a collection of packages for statistical network analysis that are designed to work together because they share common data representations and 'API' design. They provide an integrated set of tools for the representation, visualization, analysis, and simulation of many different forms of network data. This package is designed to make it easy to install and load the key 'statnet' packages in a single step. Learn more about 'statnet' at <http://www.statnet.org>. For an introduction to functions in this package, type help(package='statnet').
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2025-09-24 |
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r-ggparallel
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public |
Create hammock plots, parallel sets, and common angle plots with 'ggplot2'.
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2025-09-24 |
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r-rclone
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public |
R version of 'GenClone' (a computer program to analyse genotypic data, test for clonality and describe spatial clonal organization, Arnaud-Haond & Belkhir 2007, <http://wwz.ifremer.fr/clonix/content/download/68205/903914/file/GenClone2.0.setup.zip>), this package allows clone handling as 'GenClone' does, plus the possibility to work with several populations, MultiLocus Lineages (MLL) custom definition and use, and p-value calculation for psex statistic (probability of originating from distinct sexual events) and psex_Fis statistic (taking account of Hardy-Weinberg equilibrium departure) as 'MLGsim'/'MLGsim2' (a program for detecting clones using a simulation approach, Stenberg et al. 2003).
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2025-09-24 |
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r-ctrdata
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public |
A system for querying, retrieving and analyzing protocol- and results-related information on clinical trials from three public registers, the 'European Union Clinical Trials Register' ('EUCTR', <https://www.clinicaltrialsregister.eu/>), 'ClinicalTrials.gov' ('CTGOV', <https://clinicaltrials.gov/>), the 'ISRCTN' (<http://www.isrctn.com/>) and the 'European Union Clinical Trials Information System' ('CTIS', <https://euclinicaltrials.eu/>). Trial information is downloaded, converted and stored in a database ('PostgreSQL', 'SQLite', 'DuckDB' or 'MongoDB'; via package 'nodbi'). Functions are included to identify deduplicated records, to easily find and extract variables (fields) of interest even from complex nesting as used by the registers, and to update previous queries. The package can be used for meta-analysis and trend-analysis of the design and conduct as well as for results of clinical trials.
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2025-09-24 |
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r-dataeditr
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public |
An interactive editor built on 'rhandsontable' to allow the interactive viewing, entering, filtering and editing of data in R <https://dillonhammill.github.io/DataEditR/>.
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2025-09-24 |
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r-gee
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public |
Generalized Estimation Equation solver.
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2025-09-24 |
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uv-build
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public |
The uv build backend
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2025-09-24 |
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r-ampir
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public |
A toolkit to predict antimicrobial peptides from protein sequences on a genome-wide scale. It incorporates two support vector machine models ("precursor" and "mature") trained on publicly available antimicrobial peptide data using calculated physico-chemical and compositional sequence properties described in Meher et al. (2017) <doi:10.1038/srep42362>. In order to support genome-wide analyses, these models are designed to accept any type of protein as input and calculation of compositional properties has been optimised for high-throughput use. For best results it is important to select the model that accurately represents your sequence type: for full length proteins, it is recommended to use the default "precursor" model. The alternative, "mature", model is best suited for mature peptide sequences that represent the final antimicrobial peptide sequence after post-translational processing. For details see Fingerhut et al. (2020) <doi:10.1093/bioinformatics/btaa653>. The 'ampir' package is also available via a Shiny based GUI at <https://ampir.marine-omics.net/>.
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2025-09-24 |
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r-osmdata
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public |
Download and import of 'OpenStreetMap' ('OSM') data as 'sf' or 'sp' objects. 'OSM' data are extracted from the 'Overpass' web server and processed with very fast 'C++' routines for return to 'R'.
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2025-09-24 |
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r-fme
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public |
Provides functions to help in fitting models to data, to perform Monte Carlo, sensitivity and identifiability analysis. It is intended to work with models be written as a set of differential equations that are solved either by an integration routine from package 'deSolve', or a steady-state solver from package 'rootSolve'. However, the methods can also be used with other types of functions.
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2025-09-24 |
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r-gluedown
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public |
Ease the transition between R vectors and markdown text. With 'gluedown' and 'rmarkdown', users can create traditional vectors in R, glue those strings together with the markdown syntax, and print those formatted vectors directly to the document. This package primarily uses GitHub Flavored Markdown (GFM), an offshoot of the unambiguous CommonMark specification by John MacFarlane (2019) <https://spec.commonmark.org/>.
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2025-09-24 |
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r-comparegroups
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public |
Create data summaries for quality control, extensive reports for exploring data, as well as publication-ready univariate or bivariate tables in several formats (plain text, HTML,LaTeX, PDF, Word or Excel. Create figures to quickly visualise the distribution of your data (boxplots, barplots, normality-plots, etc.). Display statistics (mean, median, frequencies, incidences, etc.). Perform the appropriate tests (t-test, Analysis of variance, Kruskal-Wallis, Fisher, log-rank, ...) depending on the nature of the described variable (normal, non-normal or qualitative). Summarize genetic data (Single Nucleotide Polymorphisms) data displaying Allele Frequencies and performing Hardy-Weinberg Equilibrium tests among other typical statistics and tests for these kind of data.
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2025-09-24 |
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r-ggfx
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public |
Provides a range of filters that can be applied to layers from the 'ggplot2' package and its extensions, along with other graphic elements such as guides and theme elements. The filters are applied at render time and thus uses the exact pixel dimensions needed.
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2025-09-24 |
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r-bvar
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public |
Estimation of hierarchical Bayesian vector autoregressive models following Kuschnig & Vashold (2021) <doi:10.18637/jss.v100.i14>. Implements hierarchical prior selection for conjugate priors in the fashion of Giannone, Lenza & Primiceri (2015) <doi:10.1162/REST_a_00483>. Functions to compute and identify impulse responses, calculate forecasts, forecast error variance decompositions and scenarios are available. Several methods to print, plot and summarise results facilitate analysis.
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2025-09-24 |
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r-ggpackets
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public |
Create groups of 'ggplot2' layers that can be easily migrated from one plot to another, reducing redundant code and improving the ability to format many plots that draw from the same source 'ggpacket' layers.
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2025-09-24 |
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r-dotwhisker
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public |
Quick and easy dot-and-whisker plots of regression results.
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2025-09-24 |
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r-onesamplemr
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public |
Useful functions for one-sample (individual level data) Mendelian randomization and instrumental variable analyses. The package includes implementations of; the Sanderson and Windmeijer (2016) <doi:10.1016/j.jeconom.2015.06.004> conditional F-statistic, the multiplicative structural mean model Hernán and Robins (2006) <doi:10.1097/01.ede.0000222409.00878.37>, and two-stage predictor substitution and two-stage residual inclusion estimators explained by Terza et al. (2008) <doi:10.1016/j.jhealeco.2007.09.009>.
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2025-09-24 |
