R-universe search: math

alanarnholt

BSDA:Basic Statistics and Data Analysis

Data sets for book "Basic Statistics and Data Analysis" by Larry J. Kitchens.

Maintained by Alan T. Arnholt. Last updated 2 years ago.

27.2 match 7 stars 9.11 score 1.3k scripts 6 dependents

airpino

HistDAWass:Histogram-Valued Data Analysis

In the framework of Symbolic Data Analysis, a relatively new approach to the statistical analysis of multi-valued data, we consider histogram-valued data, i.e., data described by univariate histograms. The methods and the basic statistics for histogram-valued data are mainly based on the L2 Wasserstein metric between distributions, i.e., the Euclidean metric between quantile functions. The package contains unsupervised classification techniques, least square regression and tools for histogram-valued data and for histogram time series. An introducing paper is Irpino A. Verde R. (2015) <doi: 10.1007/s11634-014-0176-4>.

Maintained by Antonio Irpino. Last updated 1 years ago.

openblas cpp openmp

43.6 match 5 stars 4.75 score 75 scripts

louisaslett

maths.genealogy:Mathematics PhD Genealogy Data and Plotting

Query, extract, and plot genealogical data from The Mathematics Genealogy Project <https://mathgenealogy.org/>. Data is gathered from the 'WebSocket' server run by the 'geneagrapher-core' project <https://github.com/davidalber/geneagrapher-core>.

Maintained by Louis Aslett. Last updated 4 days ago.

37.5 match 2 stars 4.95 score

rspatial

terra:Spatial Data Analysis

Methods for spatial data analysis with vector (points, lines, polygons) and raster (grid) data. Methods for vector data include geometric operations such as intersect and buffer. Raster methods include local, focal, global, zonal and geometric operations. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/> to get started. 'terra' replaces the 'raster' package ('terra' can do more, and it is faster and easier to use).

Maintained by Robert J. Hijmans. Last updated 8 hours ago.

geospatial raster spatial vector onetbb proj gdal geos cpp

6.6 match 559 stars 17.64 score 17k scripts 851 dependents

r-forge

xtable:Export Tables to LaTeX or HTML

Coerce data to LaTeX and HTML tables.

Maintained by David Scott. Last updated 5 years ago.

8.4 match 13.25 score 26k scripts 2.3k dependents

lightbluetitan

educationR:A Comprehensive Collection of Educational Datasets

Provides a comprehensive collection of datasets related to education, covering topics such as student performance, learning methods, test scores, absenteeism, and other educational metrics. This package is designed as a resource for educational researchers, data analysts, and statisticians to explore and analyze data in the field of education.

Maintained by Renzo Caceres Rossi. Last updated 3 months ago.

24.7 match 4 stars 4.30 score 3 scripts

jbryer

likert:Analysis and Visualization Likert Items

An approach to analyzing Likert response items, with an emphasis on visualizations. The stacked bar plot is the preferred method for presenting Likert results. Tabular results are also implemented along with density plots to assist researchers in determining whether Likert responses can be used quantitatively instead of qualitatively. See the likert(), summary.likert(), and plot.likert() functions to get started.

Maintained by Jason Bryer. Last updated 3 years ago.

10.2 match 310 stars 10.22 score 480 scripts 2 dependents

bioc

SparseArray:High-performance sparse data representation and manipulation in R

The SparseArray package provides array-like containers for efficient in-memory representation of multidimensional sparse data in R (arrays and matrices). The package defines the SparseArray virtual class and two concrete subclasses: COO_SparseArray and SVT_SparseArray. Each subclass uses its own internal representation of the nonzero multidimensional data: the "COO layout" and the "SVT layout", respectively. SVT_SparseArray objects mimic as much as possible the behavior of ordinary matrix and array objects in base R. In particular, they suppport most of the "standard matrix and array API" defined in base R and in the matrixStats package from CRAN.

Maintained by Hervé Pagès. Last updated 23 days ago.

infrastructure datarepresentation bioconductor-package core-package openmp

8.0 match 8 stars 12.68 score 79 scripts 1.2k dependents

ropensci

katex:Rendering Math to HTML, 'MathML', or R-Documentation Format

Convert latex math expressions to HTML and 'MathML' for use in markdown documents or package manual pages. The rendering is done in R using the V8 engine (i.e. server-side), which eliminates the need for embedding the 'MathJax' library into your web pages. In addition a 'math-to-rd' wrapper is provided to automatically render beautiful math in R documentation files.

Maintained by Jeroen Ooms. Last updated 6 months ago.

12.3 match 37 stars 7.97 score 29 scripts 4 dependents

relund

gMOIP:Tools for 2D and 3D Plots of Single and Multi-Objective Linear/Integer Programming Models

Make 2D and 3D plots of linear programming (LP), integer linear programming (ILP), or mixed integer linear programming (MILP) models with up to three objectives. Plots of both the solution and criterion space are possible. For instance the non-dominated (Pareto) set for bi-objective LP/ILP/MILP programming models (see vignettes for an overview). The package also contains an function for checking if a point is inside the convex hull.

Maintained by Lars Relund Nielsen. Last updated 5 months ago.

2d-plot 3d-plot bi-objective convex-hull integer-programming linear-programming math milp mixed-integer-programming multi-objective polytope tri-objective visualization

11.0 match 5 stars 7.83 score 79 scripts 3 dependents

yixuan

prettydoc:Creating Pretty Documents from R Markdown

Creating tiny yet beautiful documents and vignettes from R Markdown. The package provides the 'html_pretty' output format as an alternative to the 'html_document' and 'html_vignette' engines that convert R Markdown into HTML pages. Various themes and syntax highlight styles are supported.

Maintained by Yixuan Qiu. Last updated 4 years ago.

html markdown r-markdown

6.7 match 485 stars 12.89 score 550 scripts 8 dependents

coneill-math

m2r:Interface to 'Macaulay2'

Persistent interface to 'Macaulay2' <http://www.math.uiuc.edu/Macaulay2/> and front-end tools facilitating its use in the 'R' ecosystem. For details see Kahle et. al. (2020) <doi:10.18637/jss.v093.i09>.

Maintained by David Kahle. Last updated 5 years ago.

cpp

15.5 match 5 stars 5.23 score 34 scripts

bioc

maftools:Summarize, Analyze and Visualize MAF Files

Analyze and visualize Mutation Annotation Format (MAF) files from large scale sequencing studies. This package provides various functions to perform most commonly used analyses in cancer genomics and to create feature rich customizable visualzations with minimal effort.

Maintained by Anand Mayakonda. Last updated 5 months ago.

datarepresentation dnaseq visualization drivermutation variantannotation featureextraction classification somaticmutation sequencing functionalgenomics survival bioinformatics cancer-genome-atlas cancer-genomics genomics maf-files tcga curl bzip2 xz-utils zlib

5.2 match 459 stars 14.63 score 948 scripts 18 dependents

stan-dev

StanHeaders:C++ Header Files for Stan

The C++ header files of the Stan project are provided by this package, but it contains little R code or documentation. The main reference is the vignette. There is a shared object containing part of the 'CVODES' library, but its functionality is not accessible from R. 'StanHeaders' is primarily useful for developers who want to utilize the 'LinkingTo' directive of their package's DESCRIPTION file to build on the Stan library without incurring unnecessary dependencies. The Stan project develops a probabilistic programming language that implements full or approximate Bayesian statistical inference via Markov Chain Monte Carlo or 'variational' methods and implements (optionally penalized) maximum likelihood estimation via optimization. The Stan library includes an advanced automatic differentiation scheme, 'templated' statistical and linear algebra functions that can handle the automatically 'differentiable' scalar types (and doubles, 'ints', etc.), and a parser for the Stan language. The 'rstan' package provides user-facing R functions to parse, compile, test, estimate, and analyze Stan models.

Maintained by Ben Goodrich. Last updated 19 hours ago.

bayesian-data-analysis bayesian-inference bayesian-statistics mcmc stan

4.8 match 1.1k stars 15.52 score 291 scripts 344 dependents

friendly

heplots:Visualizing Hypothesis Tests in Multivariate Linear Models

Provides HE plot and other functions for visualizing hypothesis tests in multivariate linear models. HE plots represent sums-of-squares-and-products matrices for linear hypotheses and for error using ellipses (in two dimensions) and ellipsoids (in three dimensions). The related 'candisc' package provides visualizations in a reduced-rank canonical discriminant space when there are more than a few response variables.

Maintained by Michael Friendly. Last updated 8 days ago.

linear-hypotheses matrices multivariate-linear-models plot repeated-measure-designs visualizing-hypothesis-tests

6.0 match 9 stars 11.49 score 1.1k scripts 7 dependents

hwborchers

pracma:Practical Numerical Math Functions

Provides a large number of functions from numerical analysis and linear algebra, numerical optimization, differential equations, time series, plus some well-known special mathematical functions. Uses 'MATLAB' function names where appropriate to simplify porting.

Maintained by Hans W. Borchers. Last updated 1 years ago.

5.0 match 29 stars 12.34 score 6.6k scripts 931 dependents

r-forge

Matrix:Sparse and Dense Matrix Classes and Methods

A rich hierarchy of sparse and dense matrix classes, including general, symmetric, triangular, and diagonal matrices with numeric, logical, or pattern entries. Efficient methods for operating on such matrices, often wrapping the 'BLAS', 'LAPACK', and 'SuiteSparse' libraries.

Maintained by Martin Maechler. Last updated 6 days ago.

openblas

3.3 match 1 stars 17.23 score 33k scripts 12k dependents

rspatial

raster:Geographic Data Analysis and Modeling

Reading, writing, manipulating, analyzing and modeling of spatial data. This package has been superseded by the "terra" package <https://CRAN.R-project.org/package=terra>.

Maintained by Robert J. Hijmans. Last updated 2 months ago.

cpp

3.3 match 164 stars 17.05 score 58k scripts 555 dependents

spatstat

spatstat.geom:Geometrical Functionality of the 'spatstat' Family

Defines spatial data types and supports geometrical operations on them. Data types include point patterns, windows (domains), pixel images, line segment patterns, tessellations and hyperframes. Capabilities include creation and manipulation of data (using command line or graphical interaction), plotting, geometrical operations (rotation, shift, rescale, affine transformation), convex hull, discretisation and pixellation, Dirichlet tessellation, Delaunay triangulation, pairwise distances, nearest-neighbour distances, distance transform, morphological operations (erosion, dilation, closing, opening), quadrat counting, geometrical measurement, geometrical covariance, colour maps, calculus on spatial domains, Gaussian blur, level sets of images, transects of images, intersections between objects, minimum distance matching. (Excludes spatial data on a network, which are supported by the package 'spatstat.linnet'.)

Maintained by Adrian Baddeley. Last updated 1 days ago.

classes-and-objects distance-calculation geometry geometry-processing images mensuration plotting point-patterns spatial-data spatial-data-analysis

4.5 match 7 stars 12.11 score 241 scripts 227 dependents

bioc

IRanges:Foundation of integer range manipulation in Bioconductor

Provides efficient low-level and highly reusable S4 classes for storing, manipulating and aggregating over annotated ranges of integers. Implements an algebra of range operations, including efficient algorithms for finding overlaps and nearest neighbors. Defines efficient list-like classes for storing, transforming and aggregating large grouped data, i.e., collections of atomic vectors and DataFrames.

Maintained by Hervé Pagès. Last updated 1 months ago.

infrastructure datarepresentation bioconductor-package core-package

3.3 match 22 stars 15.09 score 2.1k scripts 1.8k dependents

r-lib

styler:Non-Invasive Pretty Printing of R Code

Pretty-prints R code without changing the user's formatting intent.

Maintained by Lorenz Walthert. Last updated 1 months ago.

pretty-print

3.0 match 754 stars 16.15 score 940 scripts 62 dependents

oobianom

quickcode:Quick and Essential 'R' Tricks for Better Scripts

The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to improve your scripts. Improve the quality and reproducibility of 'R' scripts.

Maintained by Obinna Obianom. Last updated 13 days ago.

colors data distributions images

6.2 match 5 stars 7.76 score 7 scripts 6 dependents

kaskr

RTMB:'R' Bindings for 'TMB'

Native 'R' interface to 'TMB' (Template Model Builder) so models can be written entirely in 'R' rather than 'C++'. Automatic differentiation, to any order, is available for a rich subset of 'R' features, including linear algebra for dense and sparse matrices, complex arithmetic, Fast Fourier Transform, probability distributions and special functions. 'RTMB' provides easy access to model fitting and validation following the principles of Kristensen, K., Nielsen, A., Berg, C. W., Skaug, H., & Bell, B. M. (2016) <DOI:10.18637/jss.v070.i05> and Thygesen, U.H., Albertsen, C.M., Berg, C.W. et al. (2017) <DOI:10.1007/s10651-017-0372-4>.

Maintained by Kasper Kristensen. Last updated 1 months ago.

openblas cpp

4.5 match 54 stars 10.49 score 394 scripts 9 dependents

spatstat

spatstat.explore:Exploratory Data Analysis for the 'spatstat' Family

Functionality for exploratory data analysis and nonparametric analysis of spatial data, mainly spatial point patterns, in the 'spatstat' family of packages. (Excludes analysis of spatial data on a linear network, which is covered by the separate package 'spatstat.linnet'.) Methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.

Maintained by Adrian Baddeley. Last updated 1 months ago.

cluster-detection confidence-intervals hypothesis-testing k-function roc-curves scan-statistics significance-testing simulation-envelopes spatial-analysis spatial-data-analysis spatial-sharpening spatial-smoothing spatial-statistics

4.5 match 1 stars 10.17 score 67 scripts 148 dependents

r-cas

Ryacas:R Interface to the 'Yacas' Computer Algebra System

Interface to the 'yacas' computer algebra system (<http://www.yacas.org/>).

Maintained by Mikkel Meyer Andersen. Last updated 2 years ago.

cpp

4.5 match 40 stars 10.15 score 167 scripts 14 dependents

r-forge

carData:Companion to Applied Regression Data Sets

Datasets to Accompany J. Fox and S. Weisberg, An R Companion to Applied Regression, Third Edition, Sage (2019).

Maintained by John Fox. Last updated 5 months ago.

3.6 match 12.41 score 944 scripts 919 dependents

r-forge

distr:Object Oriented Implementation of Distributions

S4-classes and methods for distributions.

Maintained by Peter Ruckdeschel. Last updated 2 months ago.

5.1 match 8.84 score 327 scripts 32 dependents

jimhester

knitrBootstrap:'knitr' Bootstrap Framework

A framework to create Bootstrap <http://getbootstrap.com/> HTML reports from 'knitr' 'rmarkdown'.

Maintained by Jim Hester. Last updated 1 years ago.

4.8 match 277 stars 9.04 score 123 scripts 1 dependents

spatstat

spatstat.linnet:Linear Networks Functionality of the 'spatstat' Family

Defines types of spatial data on a linear network and provides functionality for geometrical operations, data analysis and modelling of data on a linear network, in the 'spatstat' family of packages. Contains definitions and support for linear networks, including creation of networks, geometrical measurements, topological connectivity, geometrical operations such as inserting and deleting vertices, intersecting a network with another object, and interactive editing of networks. Data types defined on a network include point patterns, pixel images, functions, and tessellations. Exploratory methods include kernel estimation of intensity on a network, K-functions and pair correlation functions on a network, simulation envelopes, nearest neighbour distance and empty space distance, relative risk estimation with cross-validated bandwidth selection. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported. Parametric models can be fitted to point pattern data using the function lppm() similar to glm(). Only Poisson models are implemented so far. Models may involve dependence on covariates and dependence on marks. Models are fitted by maximum likelihood. Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise(), AIC()) and variable selection (sdr). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots. Random point patterns on a network can be generated using a variety of models.

Maintained by Adrian Baddeley. Last updated 2 months ago.

density-estimation heat-equation kernel-density-estimation network-analysis point-processes spatial-data-analysis statistical-analysis statistical-inference statistical-models

4.5 match 6 stars 9.64 score 35 scripts 43 dependents

mightymetrika

scdtb:Single Case Design Tools

In some situations where researchers would like to demonstrate causal effects, it is hard to obtain a sample size that would allow for a well-powered randomized controlled trial. Single case designs are experimental designs that can be used to demonstrate causal effects with only one participant or with only a few participants. The 'scdtb' package provides a suite of tools for analyzing data from studies that use single case designs. The nap() function can be used to compute the nonoverlap of all pairs as outlined by the What Works Clearinghouse (2022) <https://ies.ed.gov/ncee/wwc/Handbooks>. The package also offers the mixed_model_analysis() and cross_lagged() functions which implement mixed effects models and cross lagged analyses as described in Maric & van der Werff (2020) <doi:10.4324/9780429273872-9>. The randomization_test() function implements randomization tests based on methods presented in Onghena (2020) <doi:10.4324/9780429273872-8>. The scdtb() 'shiny' application can be used to upload single case design data and access various 'scdtb' tools for plotting and analysis.

Maintained by Mackson Ncube. Last updated 6 months ago.

data math science statistics

11.0 match 3.74 score 5 scripts

melff

memisc:Management of Survey Data and Presentation of Analysis Results

An infrastructure for the management of survey data including value labels, definable missing values, recoding of variables, production of code books, and import of (subsets of) 'SPSS' and 'Stata' files is provided. Further, the package allows to produce tables and data frames of arbitrary descriptive statistics and (almost) publication-ready tables of regression model estimates, which can be exported to 'LaTeX' and HTML.

Maintained by Martin Elff. Last updated 11 days ago.

survey-data

3.3 match 46 stars 12.34 score 1.2k scripts 13 dependents

statmanrobin

Stat2Data:Datasets for Stat2

Datasets for the textbook Stat2: Modeling with Regression and ANOVA (second edition). The package also includes data for the first edition, Stat2: Building Models for a World of Data and a few functions for plotting diagnostics.

Maintained by Robin Lock. Last updated 6 years ago.

7.8 match 5 stars 4.94 score 544 scripts

r-forge

Rmpfr:Interface R to MPFR - Multiple Precision Floating-Point Reliable

Arithmetic (via S4 classes and methods) for arbitrary precision floating point numbers, including transcendental ("special") functions. To this end, the package interfaces to the 'LGPL' licensed 'MPFR' (Multiple Precision Floating-Point Reliable) Library which itself is based on the 'GMP' (GNU Multiple Precision) Library.

Maintained by Martin Maechler. Last updated 4 months ago.

mpfr4 gmp

3.3 match 11.30 score 316 scripts 141 dependents

rstudio

shiny:Web Application Framework for R

Makes it incredibly easy to build interactive web applications with R. Automatic "reactive" binding between inputs and outputs and extensive prebuilt widgets make it possible to build beautiful, responsive, and powerful applications with minimal effort.

Maintained by Winston Chang. Last updated 13 days ago.

reactive rstudio shiny web-app web-development

1.8 match 5.4k stars 21.28 score 108k scripts 1.8k dependents

eddelbuettel

nanotime:Nanosecond-Resolution Time Support for R

Full 64-bit resolution date and time functionality with nanosecond granularity is provided, with easy transition to and from the standard 'POSIXct' type. Three additional classes offer interval, period and duration functionality for nanosecond-resolution timestamps.

Maintained by Dirk Eddelbuettel. Last updated 1 months ago.

datetime datetimes nanosecond-resolution nanoseconds cpp

3.3 match 53 stars 10.91 score 134 scripts 17 dependents

rcalinjageman

esci:Estimation Statistics with Confidence Intervals

A collection of functions and 'jamovi' module for the estimation approach to inferential statistics, the approach which emphasizes effect sizes, interval estimates, and meta-analysis. Nearly all functions are based on 'statpsych' and 'metafor'. This package is still under active development, and breaking changes are likely, especially with the plot and hypothesis test functions. Data sets are included for all examples from Cumming & Calin-Jageman (2024) <ISBN:9780367531508>.

Maintained by Robert Calin-Jageman. Last updated 22 days ago.

jamovi jasp science statistics visualization

6.5 match 22 stars 5.42 score 12 scripts

muschellij2

fslr:Wrapper Functions for 'FSL' ('FMRIB' Software Library) from Functional MRI of the Brain ('FMRIB')

Wrapper functions that interface with 'FSL' <http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/>, a powerful and commonly-used 'neuroimaging' software, using system commands. The goal is to be able to interface with 'FSL' completely in R, where you pass R objects of class 'nifti', implemented by package 'oro.nifti', and the function executes an 'FSL' command and returns an R object of class 'nifti' if desired.

Maintained by John Muschelli. Last updated 1 months ago.

fsl fslr neuroimaging neuroimaging-analysis neuroimaging-data-science

4.3 match 41 stars 8.01 score 420 scripts

tslumley

mitools:Tools for Multiple Imputation of Missing Data

Tools to perform analyses and combine results from multiple-imputation datasets.

Maintained by Thomas Lumley. Last updated 6 years ago.

3.4 match 1 stars 9.50 score 716 scripts 249 dependents

yihui

xfun:Supporting Functions for Packages Maintained by 'Yihui Xie'

Miscellaneous functions commonly used in other packages maintained by 'Yihui Xie'.

Maintained by Yihui Xie. Last updated 3 days ago.

1.8 match 145 stars 18.18 score 916 scripts 4.4k dependents

symengine

symengine:Interface to the 'SymEngine' Library

Provides an R interface to 'SymEngine' <https://github.com/symengine/>, a standalone 'C++' library for fast symbolic manipulation. The package has functionalities for symbolic computation like calculating exact mathematical expressions, solving systems of linear equations and code generation.

Maintained by Jialin Ma. Last updated 1 years ago.

mpfr4 gmp cpp

3.9 match 26 stars 8.20 score 33 scripts 10 dependents

mgondan

mathml:Translate R Expressions to 'MathML' and 'LaTeX'/'MathJax'

Translate R expressions to 'MathML' or 'MathJax'/'LaTeX' so that they can be rendered in R markdown documents and shiny apps. This package depends on R package 'rolog', which requires an installation of the 'SWI'-'Prolog' runtime either from 'swi-prolog.org' or from R package 'rswipl'.

Maintained by Matthias Gondan. Last updated 5 days ago.

5.0 match 3 stars 6.33 score 32 scripts

r-cas

caracas:Computer Algebra

Computer algebra via the 'SymPy' library (<https://www.sympy.org/>). This makes it possible to solve equations symbolically, find symbolic integrals, symbolic sums and other important quantities.

Maintained by Mikkel Meyer Andersen. Last updated 14 days ago.

4.5 match 24 stars 6.80 score 87 scripts 1 dependents

reinhardfurrer

spam:SPArse Matrix

Set of functions for sparse matrix algebra. Differences with other sparse matrix packages are: (1) we only support (essentially) one sparse matrix format, (2) based on transparent and simple structure(s), (3) tailored for MCMC calculations within G(M)RF. (4) and it is fast and scalable (with the extension package spam64). Documentation about 'spam' is provided by vignettes included in this package, see also Furrer and Sain (2010) <doi:10.18637/jss.v036.i10>; see 'citation("spam")' for details.

Maintained by Reinhard Furrer. Last updated 2 months ago.

fortran openblas cpp

3.3 match 1 stars 9.26 score 420 scripts 433 dependents

dmurdoch

rgl:3D Visualization Using OpenGL

Provides medium to high level functions for 3D interactive graphics, including functions modelled on base graphics (plot3d(), etc.) as well as functions for constructing representations of geometric objects (cube3d(), etc.). Output may be on screen using OpenGL, or to various standard 3D file formats including WebGL, PLY, OBJ, STL as well as 2D image formats, including PNG, Postscript, SVG, PGF.

Maintained by Duncan Murdoch. Last updated 2 months ago.

graphics opengl rgl webgl libglu libglvnd libpng libx11 freetype cpp

1.7 match 91 stars 17.49 score 7.3k scripts 300 dependents

bioc

rsbml:R support for SBML, using libsbml

Links R to libsbml for SBML parsing, validating output, provides an S4 SBML DOM, converts SBML to R graph objects. Optionally links to the SBML ODE Solver Library (SOSLib) for simulating models.

Maintained by Michael Lawrence. Last updated 17 days ago.

graphandnetwork pathways network libsbml cpp

6.3 match 4.71 score 19 scripts 1 dependents

kaskr

RTMBp:'R' Bindings for 'TMB'

Native 'R' interface to 'TMB' (Template Model Builder) so models can be written entirely in 'R' rather than 'C++'. Automatic differentiation, to any order, is available for a rich subset of 'R' features, including linear algebra for dense and sparse matrices, complex arithmetic, Fast Fourier Transform, probability distributions and special functions. 'RTMBp' provides easy access to model fitting and validation following the principles of Kristensen, K., Nielsen, A., Berg, C. W., Skaug, H., & Bell, B. M. (2016) <DOI:10.18637/jss.v070.i05> and Thygesen, U.H., Albertsen, C.M., Berg, C.W. et al. (2017) <DOI:10.1007/s10651-017-0372-4>.

Maintained by Kasper Kristensen. Last updated 1 months ago.

openblas cpp openmp

4.5 match 51 stars 6.44 score 1 scripts

jhhmuc

pairwise:Rasch Model Parameters by Pairwise Algorithm

Performs the explicit calculation -- not estimation! -- of the Rasch item parameters for dichotomous and polytomous item responses, using a pairwise comparison approach. Person parameters (WLE) are calculated according to Warm's weighted likelihood approach.

Maintained by Joerg-Henrik Heine. Last updated 2 years ago.

7.2 match 3.96 score 38 scripts 1 dependents

jverzani

UsingR:Data Sets, Etc. for the Text "Using R for Introductory Statistics", Second Edition

A collection of data sets to accompany the textbook "Using R for Introductory Statistics," second edition.

Maintained by John Verzani. Last updated 3 years ago.

5.7 match 1 stars 4.97 score 1.4k scripts

bryanhanson

LearnPCA:Functions, Data Sets and Vignettes to Aid in Learning Principal Components Analysis (PCA)

Principal component analysis (PCA) is one of the most widely used data analysis techniques. This package provides a series of vignettes explaining PCA starting from basic concepts. The primary purpose is to serve as a self-study resource for anyone wishing to understand PCA better. A few convenience functions are provided as well.

Maintained by Bryan A. Hanson. Last updated 10 months ago.

4.5 match 10 stars 6.20 score 1 scripts

coolbutuseless

insitu:By-Reference Routines for Numeric Vectors

Using by-reference semantics, functions in this package are crafted to modify the input objects in-place and avoid allocating new memory. By avoiding memory allocations (and the associated garbage colection these require), operations performed by-reference can be faster than those performed with R's default copy-on-modify semantics.

Maintained by Mike Cheng. Last updated 8 hours ago.

5.3 match 32 stars 5.28 score 10 scripts

r-lib

pkgdown:Make Static HTML Documentation for a Package

Generate an attractive and useful website from a source package. 'pkgdown' converts your documentation, vignettes, 'README', and more to 'HTML' making it easy to share information about your package online.

Maintained by Hadley Wickham. Last updated 9 hours ago.

documentation-tool

1.5 match 734 stars 18.47 score 588 scripts 162 dependents

aloy

lmeresampler:Bootstrap Methods for Nested Linear Mixed-Effects Models

Bootstrap routines for nested linear mixed effects models fit using either 'lme4' or 'nlme'. The provided 'bootstrap()' function implements the parametric, residual, cases, random effect block (REB), and wild bootstrap procedures. An overview of these procedures can be found in Van der Leeden et al. (2008) <doi: 10.1007/978-0-387-73186-5_11>, Carpenter, Goldstein & Rasbash (2003) <doi: 10.1111/1467-9876.00415>, and Chambers & Chandra (2013) <doi: 10.1080/10618600.2012.681216>.

Maintained by Adam Loy. Last updated 1 years ago.

3.5 match 37 stars 7.83 score 102 scripts 3 dependents

laplacesdemonr

LaplacesDemon:Complete Environment for Bayesian Inference

Provides a complete environment for Bayesian inference using a variety of different samplers (see ?LaplacesDemon for an overview).

Maintained by Henrik Singmann. Last updated 12 months ago.

2.0 match 93 stars 13.45 score 1.8k scripts 60 dependents

bertcarnell

triangle:Distribution Functions and Parameter Estimates for the Triangle Distribution

Provides the "r, q, p, and d" distribution functions for the triangle distribution. Also includes maximum likelihood estimation of parameters.

Maintained by Rob Carnell. Last updated 7 months ago.

triangle triangle-distribution

3.3 match 3 stars 8.01 score 293 scripts 21 dependents

mkoohafkan

arcpy:Interface to 'ArcGIS' 'Python' Modules

An interface to the 'ArcGIS' 'arcpy' and 'arcgis' 'python' API <https://pro.arcgis.com/en/pro-app/latest/arcpy/get-started/arcgis-api-for-python.htm>. Provides various tools for installing and configuring a 'Conda' environment for accessing 'ArcGIS' geoprocessing functions. Helper functions for manipulating and converting 'ArcGIS' objects from R are also provided.

Maintained by Michael Koohafkan. Last updated 6 months ago.

4.8 match 9 stars 5.26 score 9 scripts

chingchuan-chen

RcppBlaze:'Rcpp' Integration for the 'Blaze' High-Performance 'C++' Math Library

Blaze is an open-source, high-performance 'C++' math library for dense and sparse arithmetic. With its state-of-the-art Smart Expression Template implementation Blaze combines the elegance and ease of use of a domain-specific language with HPC-grade performance, making it one of the most intuitive and fastest 'C++' math libraries available. The 'RcppBlaze' package includes the header files from the 'Blaze' library with disabling some functionalities related to link to the thread and system libraries which make 'RcppBlaze' be a header-only library. Therefore, users do not need to install 'Blaze'.

Maintained by Ching-Chuan Chen. Last updated 10 months ago.

openblas cpp openmp

5.2 match 16 stars 4.86 score 2 scripts 1 dependents

business-science

tidyquant:Tidy Quantitative Financial Analysis

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.

Maintained by Matt Dancho. Last updated 1 months ago.

dplyr financial-analysis financial-data financial-statements multiple-stocks performance-analysis performanceanalytics quantmod stock stock-exchanges stock-indexes stock-lists stock-performance stock-prices stock-symbol tidyverse time-series timeseries xts

1.9 match 872 stars 13.34 score 5.2k scripts

bioc

beachmat:Compiling Bioconductor to Handle Each Matrix Type

Provides a consistent C++ class interface for reading from a variety of commonly used matrix types. Ordinary matrices and several sparse/dense Matrix classes are directly supported, along with a subset of the delayed operations implemented in the DelayedArray package. All other matrix-like objects are supported by calling back into R.

Maintained by Aaron Lun. Last updated 2 days ago.

datarepresentation dataimport infrastructure bioconductor-package human-cell-atlas matrix-library cpp

2.3 match 4 stars 11.09 score 21 scripts 142 dependents

stan-dev

posterior:Tools for Working with Posterior Distributions

Provides useful tools for both users and developers of packages for fitting Bayesian models or working with output from Bayesian models. The primary goals of the package are to: (a) Efficiently convert between many different useful formats of draws (samples) from posterior or prior distributions. (b) Provide consistent methods for operations commonly performed on draws, for example, subsetting, binding, or mutating draws. (c) Provide various summaries of draws in convenient formats. (d) Provide lightweight implementations of state of the art posterior inference diagnostics. References: Vehtari et al. (2021) <doi:10.1214/20-BA1221>.

Maintained by Paul-Christian Bürkner. Last updated 10 days ago.

bayes bayesian mcmc

1.5 match 168 stars 16.13 score 3.3k scripts 342 dependents

trinker

wakefield:Generate Random Data Sets

Generates random data sets including: data.frames, lists, and vectors.

Maintained by Tyler Rinker. Last updated 5 years ago.

data-generation wakefield

3.3 match 256 stars 7.13 score 209 scripts

rudeboybert

resampledata:Data Sets for Mathematical Statistics with Resampling in R

Package of data sets from "Mathematical Statistics with Resampling in R" (1st Ed. 2011, 2nd Ed. 2018) by Laura Chihara and Tim Hesterberg.

Maintained by Albert Y. Kim. Last updated 4 months ago.

4.5 match 15 stars 5.15 score 187 scripts

zhenghuanie

sem:Structural Equation Models

Functions for fitting general linear structural equation models (with observed and latent variables) using the RAM approach, and for fitting structural equations in observed-variable models by two-stage least squares.

Maintained by Zhenghua Nie. Last updated 7 months ago.

openblas cpp

3.3 match 7.01 score 310 scripts 42 dependents

crp2a

gamma:Dose Rate Estimation from in-Situ Gamma-Ray Spectrometry Measurements

Process in-situ Gamma-Ray Spectrometry for Luminescence Dating. This package allows to import, inspect and correct the energy shifts of gamma-ray spectra. It provides methods for estimating the gamma dose rate by the use of a calibration curve as described in Mercier and Falguères (2007). The package only supports Canberra CNF and TKA and Kromek SPE files.

Maintained by Archéosciences Bordeaux. Last updated 6 months ago.

archaeometry gamma-spectrometry geochronology luminescence-dating

3.3 match 6 stars 6.99 score 11 scripts 1 dependents

sigbertklinke

exams.forge:Support for Compiling Examination Tasks using the 'exams' Package

The main aim is to further facilitate the creation of exercises based on the package 'exams' by Grün, B., and Zeileis, A. (2009) <doi:10.18637/jss.v029.i10>. Creating effective student exercises involves challenges such as creating appropriate data sets and ensuring access to intermediate values for accurate explanation of solutions. The functionality includes the generation of univariate and bivariate data including simple time series, functions for theoretical distributions and their approximation, statistical and mathematical calculations for tasks in basic statistics courses as well as general tasks such as string manipulation, LaTeX/HTML formatting and the editing of XML task files for 'Moodle'.

Maintained by Sigbert Klinke. Last updated 8 months ago.

8.5 match 2.70 score 1 scripts

ropensci

jqr:Client for 'jq', a 'JSON' Processor

Client for 'jq', a 'JSON' processor (<https://jqlang.github.io/jq/>), written in C. 'jq' allows the following with 'JSON' data: index into, parse, do calculations, cut up and filter, change key names and values, perform conditionals and comparisons, and more.

Maintained by Jeroen Ooms. Last updated 3 months ago.

jq json

2.3 match 144 stars 10.04 score 95 scripts 28 dependents

bioc

cmapR:CMap Tools in R

The Connectivity Map (CMap) is a massive resource of perturbational gene expression profiles built by researchers at the Broad Institute and funded by the NIH Library of Integrated Network-Based Cellular Signatures (LINCS) program. Please visit https://clue.io for more information. The cmapR package implements methods to parse, manipulate, and write common CMap data objects, such as annotated matrices and collections of gene sets.

Maintained by Ted Natoli. Last updated 5 months ago.

dataimport datarepresentation geneexpression bioconductor bioinformatics cmap

2.5 match 89 stars 8.85 score 298 scripts

bioc

BumpyMatrix:Bumpy Matrix of Non-Scalar Objects

Implements the BumpyMatrix class and several subclasses for holding non-scalar objects in each entry of the matrix. This is akin to a ragged array but the raggedness is in the third dimension, much like a bumpy surface - hence the name. Of particular interest is the BumpyDataFrameMatrix, where each entry is a Bioconductor data frame. This allows us to naturally represent multivariate data in a format that is compatible with two-dimensional containers like the SummarizedExperiment and MultiAssayExperiment objects.

Maintained by Aaron Lun. Last updated 3 months ago.

software infrastructure datarepresentation

3.3 match 1 stars 6.59 score 39 scripts 11 dependents

josue-rodriguez

psymetadata:Open Datasets from Meta-Analyses in Psychology Research

Data and examples from meta-analyses in psychology research.

Maintained by Josue E. Rodriguez. Last updated 2 years ago.

6.3 match 1 stars 3.40 score 50 scripts

rstudio

keras3:R Interface to 'Keras'

Interface to 'Keras' <https://keras.io>, a high-level neural networks API. 'Keras' was developed with a focus on enabling fast experimentation, supports both convolution based networks and recurrent networks (as well as combinations of the two), and runs seamlessly on both CPU and GPU devices.

Maintained by Tomasz Kalinowski. Last updated 4 days ago.

1.5 match 845 stars 13.57 score 264 scripts 2 dependents

atusy

ftExtra:Extensions for 'Flextable'

Build display tables easily by extending the functionality of the 'flextable' package. Features include spanning header, grouping rows, parsing markdown and so on.

Maintained by Atsushi Yasumoto. Last updated 1 months ago.

2.2 match 65 stars 9.19 score 194 scripts

r-forge

RandVar:Implementation of Random Variables

Implements random variables by means of S4 classes and methods.

Maintained by Matthias Kohl. Last updated 2 months ago.

3.3 match 6.03 score 43 scripts 7 dependents

taiyun

corrplot:Visualization of a Correlation Matrix

Provides a visual exploratory tool on correlation matrix that supports automatic variable reordering to help detect hidden patterns among variables.

Maintained by Taiyun Wei. Last updated 5 months ago.

corrplot visualization

1.1 match 323 stars 17.66 score 28k scripts 517 dependents

spatstat

spatstat.sparse:Sparse Three-Dimensional Arrays and Linear Algebra Utilities

Defines sparse three-dimensional arrays and supports standard operations on them. The package also includes utility functions for matrix calculations that are common in statistics, such as quadratic forms.

Maintained by Adrian Baddeley. Last updated 8 months ago.

arrays sparse-matrix sparse-representations

2.3 match 2 stars 8.72 score 7 scripts 150 dependents

cran

bdsmatrix:Routines for Block Diagonal Symmetric Matrices

This is a special case of sparse matrices, used by coxme.

Maintained by Terry Therneau. Last updated 1 years ago.

3.3 match 1 stars 5.91 score 202 dependents

stekhoven

missForest:Nonparametric Missing Value Imputation using Random Forest

The function 'missForest' in this package is used to impute missing values particularly in the case of mixed-type data. It uses a random forest trained on the observed values of a data matrix to predict the missing values. It can be used to impute continuous and/or categorical data including complex interactions and non-linear relations. It yields an out-of-bag (OOB) imputation error estimate without the need of a test set or elaborate cross-validation. It can be run in parallel to save computation time.

Maintained by Daniel J. Stekhoven. Last updated 1 years ago.

1.7 match 92 stars 11.53 score 1.1k scripts 32 dependents

pbiecek

SmarterPoland:Tools for Accessing Various Datasets Developed by the Foundation SmarterPoland.pl

Tools for accessing and processing datasets prepared by the Foundation SmarterPoland.pl. Among all: access to API of Google Maps, Central Statistical Office of Poland, MojePanstwo, Eurostat, WHO and other sources.

Maintained by Przemyslaw Biecek. Last updated 2 years ago.

3.3 match 8 stars 5.67 score 196 scripts 2 dependents

philippallmann

ANOM:Analysis of Means

Analysis of means (ANOM) as used in technometrical computing. The package takes results from multiple comparisons with the grand mean (obtained with 'multcomp', 'SimComp', 'nparcomp', or 'MCPAN') or corresponding simultaneous confidence intervals as input and produces ANOM decision charts that illustrate which group means deviate significantly from the grand mean.

Maintained by Philip Pallmann. Last updated 8 years ago.

4.0 match 4.70 score 10 scripts

noaa-fims

FIMS:The Fisheries Integrated Modeling System

The Fisheries Integrated Modeling System is a next-generation framework of stock assessment models, assisting fishery managers with the goal of achieving sustainable fisheries. This system, when completed in a few years, offers the NOAA Fisheries and global fisheries science communities an advanced set of stock assessment models. These tools can be used separately or in combination to incorporate ecosystem and socioeconomic data and models, as well as climate effects and other drivers within the marine environment, into stock assessment models.

Maintained by Kelli F. Johnson. Last updated 2 months ago.

cpp

3.3 match 19 stars 5.62 score 24 scripts

eddelbuettel

binb:'binb' is not 'Beamer'

A collection of 'LaTeX' styles using 'Beamer' customization for pdf-based presentation slides in 'RMarkdown'. At present it contains 'RMarkdown' adaptations of the LaTeX themes 'Metropolis' (formerly 'mtheme') theme by Matthias Vogelgesang and others (now included in 'TeXLive'), the 'IQSS' them by Ista Zahn (which is included here), and the 'Monash' theme by Rob J Hyndman. Additional (free) fonts may be needed: 'Metropolis' prefers 'Fira', and 'IQSS' requires 'Libertinus'.

Maintained by Dirk Eddelbuettel. Last updated 3 months ago.

beamer beamer-presentation beamer-theme markdown pdf rmarkdown rmarkdown-beamer

2.2 match 189 stars 8.31 score 2 scripts 2 dependents

billvenables

polynom:A Collection of Functions to Implement a Class for Univariate Polynomial Manipulations

A collection of functions to implement a class for univariate polynomial manipulations.

Maintained by Bill Venables. Last updated 3 years ago.

1.9 match 1 stars 9.50 score 438 scripts 614 dependents

youyifong

kyotil:Utility Functions for Statistical Analysis Report Generation and Monte Carlo Studies

Helper functions for creating formatted summary of regression models, writing publication-ready tables to latex files, and running Monte Carlo experiments.

Maintained by Youyi Fong. Last updated 7 days ago.

openblas

2.3 match 7.87 score 236 scripts 7 dependents

coursekata

coursekata:Packages and Functions for 'CourseKata' Courses

Easily install and load all packages and functions used in 'CourseKata' courses. Aid teaching with helper functions and augment generic functions to provide cohesion between the network of packages. Learn more about 'CourseKata' at <https://coursekata.org>.

Maintained by Adam Blake. Last updated 3 months ago.

3.8 match 4 stars 4.68 score 60 scripts

numbersman77

reporttools:Generate "LaTeX"" Tables of Descriptive Statistics

These functions are especially helpful when writing reports of data analysis using "Sweave".

Maintained by Kaspar Rufibach. Last updated 3 years ago.

5.2 match 2 stars 3.35 score 113 scripts

jaganmn

flint:Fast Library for Number Theory

An R interface to 'FLINT' <https://flintlib.org/>, a C library for number theory. 'FLINT' extends GNU 'MPFR' <https://www.mpfr.org/> and GNU 'MP' <https://gmplib.org/> with support for operations on standard rings (the integers, the integers modulo n, finite fields, the rational, p-adic, real, and complex numbers) as well as matrices and polynomials over rings. 'FLINT' implements midpoint-radius interval arithmetic, also known as ball arithmetic, in the real and complex numbers, enabling computation in arbitrary precision with rigorous propagation of rounding errors; see Johansson (2017) <doi:10.1109/TC.2017.2690633>. Finally, 'FLINT' provides ball arithmetic implementations of many special mathematical functions, with high coverage of reference works such as the NIST Digital Library of Mathematical Functions <https://dlmf.nist.gov/>. The R interface defines S4 classes, generic functions, and methods for representation and basic operations as well as plain R functions mirroring and vectorizing entry points in the C library.

Maintained by Mikael Jagan. Last updated 3 days ago.

flint mpfr4 gmp

3.3 match 6 stars 5.18 score 20 scripts

tidyverse

duckplyr:A 'DuckDB'-Backed Version of 'dplyr'

A drop-in replacement for 'dplyr', powered by 'DuckDB' for performance. Offers convenient utilities for working with in-memory and larger-than-memory data while retaining full 'dplyr' compatibility.

Maintained by Kirill Müller. Last updated 4 days ago.

analytics dataframe dplyr duckdb performance

1.5 match 309 stars 11.33 score 220 scripts

sigbertklinke

HKRbook:Apps and Data for the Book "Introduction to Statistics"

Functions, Shiny apps and data for the book "Introduction to Statistics" by Wolfgang Karl Härdle, Sigbert Klinke, and Bernd Rönz (2015) <doi:10.1007/978-3-319-17704-5>.

Maintained by Sigbert Klinke. Last updated 2 years ago.

4.5 match 1 stars 3.70 score

davidsjoberg

hablar:Non-Astonishing Results in R

Simple tools for converting columns to new data types. Intuitive functions for columns with missing values.

Maintained by David Sjoberg. Last updated 2 years ago.

2.0 match 59 stars 8.30 score 468 scripts

spkaluzny

splusTimeDate:Times and Dates from 'S-PLUS'

A collection of classes and methods for working with times and dates. The code was originally available in 'S-PLUS'.

Maintained by Stephen Kaluzny. Last updated 2 months ago.

datetime

3.3 match 4.94 score 58 scripts 2 dependents

stencila

stencilaschema:Bindings for Stencila Schema

Provides R bindings for the Stencila Schema <https://schema.stenci.la>. This package is primarily aimed at R developers wanting to programmatically generate, or modify, executable documents.

Maintained by Nokome Bentley. Last updated 3 years ago.

json-schema python rust schema-org semantic typescript vocabulary

3.3 match 17 stars 4.93 score 2 scripts

kjhealy

gssrdoc:Document General Social Survey Variable

The General Social Survey (GSS) is a long-running, mostly annual survey of US households. It is administered by the National Opinion Research Center (NORC). This package contains the a tibble with information on the survey variables, together with every variable documented as an R help page. For more information on the GSS see \url{http://gss.norc.org}.

Maintained by Kieran Healy. Last updated 11 months ago.

7.0 match 2.28 score 38 scripts

tslumley

svylme:Linear Mixed Models for Complex Survey Data

Linear mixed models for complex survey data, by pairwise composite likelihood, as described in Lumley & Huang (2023) <arXiv:2311.13048>. Supports nested and crossed random effects, and correlated random effects as in genetic models. Allows for multistage sampling and for other designs where pairwise sampling probabilities are specified or can be calculated.

Maintained by Thomas Lumley. Last updated 8 months ago.

3.4 match 34 stars 4.65 score 18 scripts

manueleleonelli

bnmonitor:An Implementation of Sensitivity Analysis in Bayesian Networks

An implementation of sensitivity and robustness methods in Bayesian networks in R. It includes methods to perform parameter variations via a variety of co-variation schemes, to compute sensitivity functions and to quantify the dissimilarity of two Bayesian networks via distances and divergences. It further includes diagnostic methods to assess the goodness of fit of a Bayesian networks to data, including global, node and parent-child monitors. Reference: M. Leonelli, R. Ramanathan, R.L. Wilkerson (2022) <doi:10.1016/j.knosys.2023.110882>.

Maintained by Manuele Leonelli. Last updated 6 months ago.

4.0 match 3 stars 3.92 score 14 scripts

mandymejia

ciftiTools:Tools for Reading, Writing, Viewing and Manipulating CIFTI Files

CIFTI files contain brain imaging data in "grayordinates," which represent the gray matter as cortical surface vertices (left and right) and subcortical voxels (cerebellum, basal ganglia, and other deep gray matter). 'ciftiTools' provides a unified environment for reading, writing, visualizing and manipulating CIFTI-format data. It supports the "dscalar," "dlabel," and "dtseries" intents. Grayordinate data is read in as a "xifti" object, which is structured for convenient access to the data and metadata, and includes support for surface geometry files to enable spatially-dependent functionality such as static or interactive visualizations and smoothing.

Maintained by Amanda Mejia. Last updated 1 months ago.

1.8 match 47 stars 8.90 score 176 scripts 4 dependents

schweflo

pandocfilters:Pandoc Filters for R

The document converter 'pandoc' <https://pandoc.org/> is widely used in the R community. One feature of 'pandoc' is that it can produce and consume JSON-formatted abstract syntax trees (AST). This allows to transform a given source document into JSON-formatted AST, alter it by so called filters and pass the altered JSON-formatted AST back to 'pandoc'. This package provides functions which allow to write such filters in native R code. Although this package is inspired by the Python package 'pandocfilters' <https://github.com/jgm/pandocfilters/>, it provides additional convenience functions which make it simple to use the 'pandocfilters' package as a report generator. Since 'pandocfilters' inherits most of it's functionality from 'pandoc' it can create documents in many formats (for more information see <https://pandoc.org/>) but is also bound to the same limitations as 'pandoc'.

Maintained by Florian Schwendinger. Last updated 3 years ago.

5.6 match 2.80 score 63 scripts

paleolimbot

rosm:Plot Raster Map Tiles from Open Street Map and Other Sources

Download and plot Open Street Map <https://www.openstreetmap.org/>, Bing Maps <https://www.bing.com/maps> and other tiled map sources. Use to create basemaps quickly and add hillshade to vector-based maps.

Maintained by Dewey Dunnington. Last updated 2 years ago.

1.9 match 27 stars 8.23 score 130 scripts 26 dependents

davidchall

jinjar:Template Engine Inspired by 'Jinja'

Template engine powered by the 'inja' C++ library. Users write a template document, using syntax inspired by the 'Jinja' Python package, and then render the final document by passing data from R. The template syntax supports features such as variables, loops, conditions and inheritance.

Maintained by David Hall. Last updated 3 days ago.

jinja template-engine cpp

2.2 match 46 stars 6.90 score 12 scripts 1 dependents

nmfs-ost

asar:Build NOAA Stock Assessment Report

Build a full or update stock assessment report for any stock assessment model. Parameterization allows the user to call a template based on their regional science center, species, area, ect.

Maintained by Samantha Schiano. Last updated 6 days ago.

latex quarto stock-assessment-reports

2.2 match 21 stars 6.87 score 3 scripts

jiscah

sequoia:Pedigree Inference from SNPs

Multi-generational pedigree inference from incomplete data on hundreds of SNPs, including parentage assignment and sibship clustering. See Huisman (2017) (<DOI:10.1111/1755-0998.12665>) for more information.

Maintained by Jisca Huisman. Last updated 9 months ago.

pedigree pedigree-reconstruction pedigrees sequoia snp snp-data fortran

2.0 match 26 stars 7.40 score 79 scripts

sfcheung

manymome:Mediation, Moderation and Moderated-Mediation After Model Fitting

Computes indirect effects, conditional effects, and conditional indirect effects in a structural equation model or path model after model fitting, with no need to define any user parameters or label any paths in the model syntax, using the approach presented in Cheung and Cheung (2024) <doi:10.3758/s13428-023-02224-z>. Can also form bootstrap confidence intervals by doing bootstrapping only once and reusing the bootstrap estimates in all subsequent computations. Supports bootstrap confidence intervals for standardized (partially or completely) indirect effects, conditional effects, and conditional indirect effects as described in Cheung (2009) <doi:10.3758/BRM.41.2.425> and Cheung, Cheung, Lau, Hui, and Vong (2022) <doi:10.1037/hea0001188>. Model fitting can be done by structural equation modeling using lavaan() or regression using lm().

Maintained by Shu Fai Cheung. Last updated 22 days ago.

bootstrapping confidence-interval lavaan manymome mediation moderated-mediation moderation regression sem standardized-effect-size structural-equation-modeling

1.8 match 1 stars 8.06 score 172 scripts 4 dependents

bioc

marray:Exploratory analysis for two-color spotted microarray data

Class definitions for two-color spotted microarray data. Fuctions for data input, diagnostic plots, normalization and quality checking.

Maintained by Yee Hwa (Jean) Yang. Last updated 5 months ago.

microarray twochannel preprocessing

1.6 match 8.92 score 222 scripts 37 dependents

cjvanlissa

tidySEM:Tidy Structural Equation Modeling

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, and to plot 'dagitty' and 'igraph' objects.

Maintained by Caspar J. van Lissa. Last updated 7 days ago.

1.3 match 58 stars 10.69 score 330 scripts 1 dependents

ropensci

tinkr:Cast '(R)Markdown' Files to 'XML' and Back Again

Parsing '(R)Markdown' files with numerous regular expressions can be fraught with peril, but it does not have to be this way. Converting '(R)Markdown' files to 'XML' using the 'commonmark' package allows in-memory editing via of 'markdown' elements via 'XPath' through the extensible 'R6' class called 'yarn'. These modified 'XML' representations can be written to '(R)Markdown' documents via an 'xslt' stylesheet which implements an extended version of 'GitHub'-flavoured 'markdown' so that you can tinker to your hearts content.

Maintained by Zhian N. Kamvar. Last updated 12 days ago.

commonmark xml xpath

1.8 match 57 stars 8.13 score 4 scripts 4 dependents

graphdr

formatdown:Formatting Numbers in 'rmarkdown' Documents

Provides a small set of tools for formatting numbers in R-markdown documents. Convert a numerical vector to character strings in power-of-ten form, decimal form, or measurement-units form; all are math-delimited for rendering as inline equations. Can also convert text into math-delimited text to match the font face and size of math-delimited numbers. Useful for rendering single numbers in inline R code chunks and for rendering columns in tables.

Maintained by Richard Layton. Last updated 10 months ago.

2.2 match 8 stars 6.46 score 27 scripts

tmsalab

edmdata:Data Sets for Psychometric Modeling

Collection of data sets from various assessments that can be used to evaluate psychometric models. These data sets have been analyzed in the following papers that introduced new methodology as part of the application section: Jimenez, A., Balamuta, J. J., & Culpepper, S. A. (2023) <doi:10.1111/bmsp.12307>, Culpepper, S. A., & Balamuta, J. J. (2021) <doi:10.1080/00273171.2021.1985949>, Yinghan Chen et al. (2021) <doi:10.1007/s11336-021-09750-9>, Yinyin Chen et al. (2020) <doi:10.1007/s11336-019-09693-2>, Culpepper, S. A. (2019a) <doi:10.1007/s11336-019-09683-4>, Culpepper, S. A. (2019b) <doi:10.1007/s11336-018-9643-8>, Culpepper, S. A., & Chen, Y. (2019) <doi:10.3102/1076998618791306>, Culpepper, S. A., & Balamuta, J. J. (2017) <doi:10.1007/s11336-015-9484-7>, and Culpepper, S. A. (2015) <doi:10.3102/1076998615595403>.

Maintained by James Joseph Balamuta. Last updated 6 months ago.

cognitive-diagnostic-models data edm

3.3 match 5 stars 4.18 score 7 scripts 1 dependents

gforge

Gmisc:Descriptive Statistics, Transition Plots, and More

Tools for making the descriptive "Table 1" used in medical articles, a transition plot for showing changes between categories (also known as a Sankey diagram), flow charts by extending the grid package, a method for variable selection based on the SVD, Bézier lines with arrows complementing the ones in the 'grid' package, and more.

Maintained by Max Gordon. Last updated 2 years ago.

cpp

1.3 match 50 stars 10.40 score 233 scripts 2 dependents

trivialfis

xgboost:Extreme Gradient Boosting

Extreme Gradient Boosting, which is an efficient implementation of the gradient boosting framework from Chen & Guestrin (2016) <doi:10.1145/2939672.2939785>. This package is its R interface. The package includes efficient linear model solver and tree learning algorithms. The package can automatically do parallel computation on a single machine which could be more than 10 times faster than existing gradient boosting packages. It supports various objective functions, including regression, classification and ranking. The package is made to be extensible, so that users are also allowed to define their own objectives easily.

Maintained by Jiaming Yuan. Last updated 8 months ago.

cpp openmp

1.2 match 6 stars 11.70 score 13k scripts 112 dependents

mccarthy-m-g

palettes:Methods for Colour Vectors and Colour Palettes

Provides a comprehensive library for colour vectors and colour palettes using a new family of colour classes (palettes_colour and palettes_palette) that always print as hex codes with colour previews. Capabilities include: formatting, casting and coercion, extraction and updating of components, plotting, colour mixing arithmetic, and colour interpolation.

Maintained by Michael McCarthy. Last updated 6 months ago.

color-palette colors colour-palette colours ggplot2 gt palettes vctrs

1.8 match 25 stars 7.58 score 42 scripts 1 dependents

nicchr

cheapr:Simple Functions to Save Time and Memory

Fast and memory-efficient (or 'cheap') tools to facilitate efficient programming, saving time and memory. It aims to provide 'cheaper' alternatives to common base R functions, as well as some additional functions.

Maintained by Nick Christofides. Last updated 4 days ago.

cpp openmp

1.9 match 20 stars 7.22 score 73 scripts 2 dependents

spkaluzny

splusTimeSeries:Time Series from 'S-PLUS'

A collection of classes and methods for working with indexed rectangular data. The index values can be calendar (timeSeries class) or numeric (signalSeries class). Methods are included for aggregation, alignment, merging, and summaries. The code was originally available in 'S-PLUS'.

Maintained by Stephen Kaluzny. Last updated 6 months ago.

data-structures time-series

3.3 match 3.95 score 20 scripts 1 dependents

lawremi

rsolr:R to Solr Interface

A comprehensive R API for querying Apache Solr databases. A Solr core is represented as a data frame or list that supports Solr-side filtering, sorting, transformation and aggregation, all through the familiar base R API. Queries are processed lazily, i.e., a query is only sent to the database when the data are required.

Maintained by Michael Lawrence. Last updated 3 years ago.

3.3 match 9 stars 3.65 score 6 scripts

christinaheinze

CondIndTests:Nonlinear Conditional Independence Tests

Code for a variety of nonlinear conditional independence tests: Kernel conditional independence test (Zhang et al., UAI 2011, <arXiv:1202.3775>), Residual Prediction test (based on Shah and Buehlmann, <arXiv:1511.03334>), Invariant environment prediction, Invariant target prediction, Invariant residual distribution test, Invariant conditional quantile prediction (all from Heinze-Deml et al., <arXiv:1706.08576>).

Maintained by Christina Heinze-Deml. Last updated 5 years ago.

2.4 match 17 stars 4.91 score 32 scripts 1 dependents

aphalo

photobiology:Photobiological Calculations

Definitions of classes, methods, operators and functions for use in photobiology and radiation meteorology and climatology. Calculation of effective (weighted) and not-weighted irradiances/doses, fluence rates, transmittance, reflectance, absorptance, absorbance and diverse ratios and other derived quantities from spectral data. Local maxima and minima: peaks, valleys and spikes. Conversion between energy-and photon-based units. Wavelength interpolation. Astronomical calculations related solar angles and day length. Colours and vision. This package is part of the 'r4photobiology' suite, Aphalo, P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.

Maintained by Pedro J. Aphalo. Last updated 2 days ago.

light photobiology quantification r4photobiology-suite radiation spectra sun-position

1.3 match 4 stars 9.35 score 604 scripts 12 dependents

hneth

unicol:The Colors of your University

Most universities use specific color combinations to express their unique brand identity. The 'unicol' package provides the colors and color palettes of various universities for easy plotting and printing in R. We collect and provide a diverse range of color palettes for creating scientific visualizations.

Maintained by Hansjoerg Neth. Last updated 7 months ago.

branding color color-palettes color-schemes corporate-design university-colors visual-identity

1.8 match 9 stars 6.58 score 10 scripts

traitecoevo

hmde:Hierarchical Methods for Differential Equations

Wrapper for Stan that offers a number of in-built models to implement a hierarchical Bayesian longitudinal model for repeat observation data. Model choice selects the differential equation that is fit to the observations. Single and multi-individual models are available.

Maintained by Tess OBrien. Last updated 1 months ago.

bayesian-inverse-problems bayesian-methods differential-equations hierarchical-models rstan stan cpp

2.0 match 3 stars 5.53 score 10 scripts

tidyfun

tf:S3 Classes and Methods for Tidy Functional Data

Defines S3 vector data types for vectors of functional data (grid-based, spline-based or functional principal components-based) with all arithmetic and summary methods, derivation, integration and smoothing, plotting, data import and export, and data wrangling, such as re-evaluating, subsetting, sub-assigning, zooming into sub-domains, or extracting functional features like minima/maxima and their locations. The implementation allows including such vectors in data frames for joint analysis of functional and scalar variables.

Maintained by Fabian Scheipl. Last updated 4 days ago.

1.8 match 7 stars 6.14 score 13 scripts 2 dependents

matthieu-bruneaux

isotracer:Isotopic Tracer Analysis Using MCMC

Implements Bayesian models to analyze data from tracer addition experiments. The implemented method was originally described in the article "A New Method to Reconstruct Quantitative Food Webs and Nutrient Flows from Isotope Tracer Addition Experiments" by López-Sepulcre et al. (2020) <doi:10.1086/708546>.

Maintained by Matthieu Bruneaux. Last updated 4 months ago.

cpp

1.8 match 5.92 score 60 scripts

konrad1991

ast2ast:Translates an R Function to a C++ Function

Enable translation of a tiny subset of R to C++. The user has to define a R function which gets translated. For a full list of possible functions check the documentation. After translation an R function is returned which is a shallow wrapper around the C++ code. Alternatively an external pointer to the C++ function is returned to the user. The intention of the package is to generate fast functions which can be used as ode-system or during optimization.

Maintained by Krämer Konrad. Last updated 3 months ago.

abstract-syntax-tree c c-plus-plus expression-template matrix rcpp transpiler vector cpp

1.5 match 34 stars 6.91 score 11 scripts 2 dependents

czopluoglu

itemanalysis:Classical Test Theory Item Analysis

Runs classical item analysis for multiple-choice test items and polytomous items (e.g., rating scales). The statistics reported in this package can be found in any measurement textbook such as Crocker and Algina (2006, ISBN:9780495395911).

Maintained by Cengiz Zopluoglu. Last updated 3 years ago.

3.4 match 2 stars 3.00 score 2 scripts

deankoch

snapKrig:Fast Kriging and Geostatistics on Grids with Kronecker Covariance

Geostatistical modeling and kriging with gridded data using spatially separable covariance functions (Kronecker covariances). Kronecker products in these models provide shortcuts for solving large matrix problems in likelihood and conditional mean, making 'snapKrig' computationally efficient with large grids. The package supplies its own S3 grid object class, and a host of methods including plot, print, Ops, square bracket replace/assign, and more. Our computational methods are described in Koch, Lele, Lewis (2020) <doi:10.7939/r3-g6qb-bq70>.

Maintained by Dean Koch. Last updated 5 months ago.

2.0 match 5 stars 5.05 score 15 scripts

const-ae

tidygenomics:Tidy Verbs for Dealing with Genomic Data Frames

Handle genomic data within data frames just as you would with 'GRanges'. This packages provides method to deal with genomic intervals the "tidy-way" which makes it simpler to integrate in the the general data munging process. The API is inspired by the popular 'bedtools' and the genome_join() method from the 'fuzzyjoin' package.

Maintained by Constantin Ahlmann-Eltze. Last updated 4 years ago.

genomics intervals tidy cpp

1.6 match 103 stars 6.49 score 30 scripts

christinaheinze

nonlinearICP:Invariant Causal Prediction for Nonlinear Models

Performs 'nonlinear Invariant Causal Prediction' to estimate the causal parents of a given target variable from data collected in different experimental or environmental conditions, extending 'Invariant Causal Prediction' from Peters, Buehlmann and Meinshausen (2016), <arXiv:1501.01332>, to nonlinear settings. For more details, see C. Heinze-Deml, J. Peters and N. Meinshausen: 'Invariant Causal Prediction for Nonlinear Models', <arXiv:1706.08576>.

Maintained by Christina Heinze-Deml. Last updated 5 years ago.

2.5 match 17 stars 3.93 score 10 scripts

christinaheinze

CompareCausalNetworks:Interface to Diverse Estimation Methods of Causal Networks

Unified interface for the estimation of causal networks, including the methods 'backShift' (from package 'backShift'), 'bivariateANM' (bivariate additive noise model), 'bivariateCAM' (bivariate causal additive model), 'CAM' (causal additive model) (from package 'CAM'; the package is temporarily unavailable on the CRAN repository; formerly available versions can be obtained from the archive), 'hiddenICP' (invariant causal prediction with hidden variables), 'ICP' (invariant causal prediction) (from package 'InvariantCausalPrediction'), 'GES' (greedy equivalence search), 'GIES' (greedy interventional equivalence search), 'LINGAM', 'PC' (PC Algorithm), 'FCI' (fast causal inference), 'RFCI' (really fast causal inference) (all from package 'pcalg') and regression.

Maintained by Christina Heinze-Deml. Last updated 5 years ago.

2.5 match 22 stars 3.90 score 12 scripts 1 dependents

jessesadler

debkeepr:Analysis of Non-Decimal Currencies and Double-Entry Bookkeeping

Analysis of historical non-decimal currencies and value systems that use tripartite or tetrapartite systems such as pounds, shillings, and pence. It introduces new vector classes to represent non-decimal currencies, making them compatible with numeric classes, and provides functions to work with these classes in data frames in the context of double-entry bookkeeping.

Maintained by Jesse Sadler. Last updated 2 years ago.

accounting digital-humanities economic-history history

1.8 match 9 stars 5.51 score 24 scripts

micbtz

equateMultiple:Equating of Multiple Forms

Equating of multiple forms using Item Response Theory (IRT) methods (Battauz M. (2017) <doi:10.1007/s11336-016-9517-x>, Battauz and 'Leoncio' (2023) <doi:10.1177/01466216231151702>, Haberman S. J. (2009) <doi:10.1002/j.2333-8504.2009.tb02197.x>).

Maintained by Michela Battauz. Last updated 5 months ago.

openblas cpp

4.0 match 2.48 score 6 scripts

jpearson0525

micromapST:Linked Micromap Plots for U. S. and Other Geographic Areas

Provides the users with the ability to quickly create linked micromap plots for a collection of geographic areas. Linked micromap plots are visualizations of geo-referenced data that link statistical graphics to an organized series of small maps or graphic images. The Help description contains examples of how to use the 'micromapST' function. Contained in this package are border group datasets to support creating linked micromap plots for the 50 U.S. states and District of Columbia (51 areas), the U. S. 20 Seer Registries, the 105 counties in the state of Kansas, the 62 counties of New York, the 24 counties of Maryland, the 29 counties of Utah, the 32 administrative areas in China, the 218 administrative areas in the UK and Ireland (for testing only), the 25 districts in the city of Seoul South Korea, and the 52 counties on the Africa continent. A border group dataset contains the boundaries related to the data level areas, a second layer boundaries, a top or third layer boundary, a parameter list of run options, and a cross indexing table between area names, abbreviations, numeric identification and alias matching strings for the specific geographic area. By specifying a border group, the package create linked micromap plots for any geographic region. The user can create and provide their own border group dataset for any area beyond the areas contained within the package. In version 3.0.0, the 'BuildBorderGroup' function was upgraded to not use the retiring 'maptools', 'rgdal', and 'rgeos' packages. References: Carr and Pickle, Chapman and Hall/CRC, Visualizing Data Patterns with Micromaps, CRC Press, 2010. Pickle, Pearson, and Carr (2015), micromapST: Exploring and Communicating Geospatial Patterns in US State Data., Journal of Statistical Software, 63(3), 1-25., <https://www.jstatsoft.org/v63/i03/>. Copyrighted 2013, 2014, 2015, 2016, 2022, 2023, 2024, and 2025 by Carr, Pearson and Pickle.

Maintained by Jim Pearson. Last updated 30 days ago.

3.5 match 2.80 score 21 scripts

bsaul

geex:An API for M-Estimation

Provides a general, flexible framework for estimating parameters and empirical sandwich variance estimator from a set of unbiased estimating equations (i.e., M-estimation in the vein of Stefanski & Boos (2002) <doi:10.1198/000313002753631330>). All examples from Stefanski & Boos (2002) are published in the corresponding Journal of Statistical Software paper "The Calculus of M-Estimation in R with geex" by Saul & Hudgens (2020) <doi:10.18637/jss.v092.i02>. Also provides an API to compute finite-sample variance corrections.

Maintained by Bradley Saul. Last updated 10 months ago.

asymptotics covariance-estimates covariance-estimation estimate-parameters estimating-equations estimation inference m-estimation robust sandwich

1.3 match 8 stars 7.70 score 131 scripts 2 dependents

mmaechler

round:Rounding to Decimal Digits

Decimal rounding is non-trivial in binary arithmetic. ISO standard round to even is more rare than typically assumed as most decimal fractions are not exactly representable in binary. Our 'roundX()' versions explore differences between current and potential future versions of round() in R. Further, provides (some partly related) C99 math lib functions not in base R.

Maintained by Martin Maechler. Last updated 1 years ago.

2.2 match 4.30 score 8 scripts

abhi-1u

texor:Converting 'LaTeX' 'R Journal' Articles into 'RJ-web-articles'

Articles in the 'R Journal' were first authored in 'LaTeX', which performs admirably for 'PDF' files but is less than ideal for modern online interfaces. The 'texor' package does all the transitional chores and conversions necessary to move to the online versions.

Maintained by Abhishek Ulayil. Last updated 3 months ago.

1.5 match 7 stars 6.28 score 8 scripts

joelkilty

MMAC:Data for Mathematical Modeling and Applied Calculus

Contains the data sets for the textbook "Mathematical Modeling and Applied Calculus" by Joel Kilty and Alex M. McAllister. The book will be published by Oxford University Press in 2018 with ISBN-13: 978-019882472.

Maintained by Joel Kilty. Last updated 7 years ago.

3.8 match 2.50 score 63 scripts

predictiveecology

NetLogoR:Build and Run Spatially Explicit Agent-Based Models

Build and run spatially explicit agent-based models using only the R platform. 'NetLogoR' follows the same framework as the 'NetLogo' software (Wilensky (1999) <http://ccl.northwestern.edu/netlogo/>) and is a translation in R of the structure and functions of 'NetLogo'. 'NetLogoR' provides new R classes to define model agents and functions to implement spatially explicit agent-based models in the R environment. This package allows benefiting of the fast and easy coding phase from the highly developed 'NetLogo' framework, coupled with the versatility, power and massive resources of the R software. Examples of two models from the NetLogo software repository (Ants <http://ccl.northwestern.edu/netlogo/models/Ants>) and Wolf-Sheep-Predation (<http://ccl.northwestern.edu/netlogo/models/WolfSheepPredation>), and a third, Butterfly, from Railsback and Grimm (2012) <https://www.railsback-grimm-abm-book.com/>, all written using 'NetLogoR' are available. The 'NetLogo' code of the original version of these models is provided alongside. A programming guide inspired from the 'NetLogo' Programming Guide (<https://ccl.northwestern.edu/netlogo/docs/programming.html>) and a dictionary of 'NetLogo' primitives (<https://ccl.northwestern.edu/netlogo/docs/dictionary.html>) equivalences are also available. NOTE: To increment 'time', these functions can use a for loop or can be integrated with a discrete event simulator, such as 'SpaDES' (<https://cran.r-project.org/package=SpaDES>). The suggested package 'fastshp' can be installed with 'install.packages("fastshp", repos = ("<https://rforge.net>"), type = "source")'.

Maintained by Eliot J B McIntire. Last updated 4 months ago.

1.3 match 38 stars 6.94 score 19 scripts

bioc

Repitools:Epigenomic tools

Tools for the analysis of enrichment-based epigenomic data. Features include summarization and visualization of epigenomic data across promoters according to gene expression context, finding regions of differential methylation/binding, BayMeth for quantifying methylation etc.

Maintained by Mark Robinson. Last updated 5 months ago.

dnamethylation geneexpression methylseq

1.6 match 5.90 score 267 scripts

jamesramsay5

TestGardener:Information Analysis for Test and Rating Scale Data

Develop, evaluate, and score multiple choice examinations, psychological scales, questionnaires, and similar types of data involving sequences of choices among one or more sets of answers. This version of the package should be considered as brand new. Almost all of the functions have been changed, including their argument list. See the file NEWS.Rd in the Inst folder for more information. Using the package does not require any formal statistical knowledge beyond what would be provided by a first course in statistics in a social science department. There the user would encounter the concept of probability and how it is used to model data and make decisions, and would become familiar with basic mathematical and statistical notation. Most of the output is in graphical form.

Maintained by James Ramsay. Last updated 12 months ago.

3.4 match 1 stars 2.70 score 5 scripts

jeroen

openssl:Toolkit for Encryption, Signatures and Certificates Based on OpenSSL

Bindings to OpenSSL libssl and libcrypto, plus custom SSH key parsers. Supports RSA, DSA and EC curves P-256, P-384, P-521, and curve25519. Cryptographic signatures can either be created and verified manually or via x509 certificates. AES can be used in cbc, ctr or gcm mode for symmetric encryption; RSA for asymmetric (public key) encryption or EC for Diffie Hellman. High-level envelope functions combine RSA and AES for encrypting arbitrary sized data. Other utilities include key generators, hash functions (md5, sha1, sha256, etc), base64 encoder, a secure random number generator, and 'bignum' math methods for manually performing crypto calculations on large multibyte integers.

Maintained by Jeroen Ooms. Last updated 1 months ago.

openssl

0.5 match 65 stars 18.00 score 632 scripts 5.0k dependents

hypertidy

affinity:Raster Georeferencing, Grid Affine Transforms, Cell Abstraction

Tools for raster georeferencing, grid affine transforms, and general raster logic. These functions provide converters between raster specifications, world vector, geotransform, 'RasterIO' window, and 'RasterIO window' in 'sf' package list format. There are functions to offset a matrix by padding any of four corners (useful for vectorizing neighbourhood operations), and helper functions to harvesting user clicks on a graphics device to use for simple georeferencing of images. Methods used are available from <https://en.wikipedia.org/wiki/World_file> and <https://gdal.org/user/raster_data_model.html>.

Maintained by Michael D. Sumner. Last updated 4 years ago.

1.9 match 14 stars 4.85 score 7 scripts

mjanuario

evolved:Open Software for Teaching Evolutionary Biology at Multiple Scales Through Virtual Inquiries

"Evolutionary Virtual Education" - 'evolved' - provides multiple tools to help educators (especially at the graduate level or in advanced undergraduate level courses) apply inquiry-based learning in general evolution classes. In particular, the tools provided include functions that simulate evolutionary processes (e.g., genetic drift, natural selection within a single locus) or concepts (e.g. Hardy-Weinberg equilibrium, phylogenetic distribution of traits). More than only simulating, the package also provides tools for students to analyze (e.g., measuring, testing, visualizing) datasets with characteristics that are common to many fields related to evolutionary biology. Importantly, the package is heavily oriented towards providing tools for inquiry-based learning - where students follow scientific practices to actively construct knowledge. For additional details, see package's vignettes.

Maintained by Matheus Januario. Last updated 1 months ago.

1.3 match 3 stars 6.73 score 23 scripts

ctlab

mwcsr:Solvers for Maximum Weight Connected Subgraph Problem and Its Variants

Algorithms for solving various Maximum Weight Connected Subgraph Problems, including variants with budget constraints, cardinality constraints, weighted edges and signals. The package represents an R interface to high-efficient solvers based on relax-and-cut approach (Álvarez-Miranda E., Sinnl M. (2017) <doi:10.1016/j.cor.2017.05.015>) mixed-integer programming (Loboda A., Artyomov M., and Sergushichev A. (2016) <doi:10.1007/978-3-319-43681-4_17>) and simulated annealing.

Maintained by Alexander Loboda. Last updated 6 months ago.

cplex cpp

1.5 match 7 stars 5.80 score 15 scripts 1 dependents

cran

schoolmath:Functions and Datasets for Math Used in School

Contains functions and datasets for math taught in school. A main focus is set to prime-calculation.

Maintained by Jörg große Schlarmann. Last updated 2 years ago.

3.5 match 2.48 score 2 dependents

melff

RKernel:Yet another R kernel for Jupyter

Provides a kernel for Jupyter.

Maintained by Martin Elff. Last updated 14 days ago.

jupyter jupyter-kernel jupyter-kernels jupyter-notebook

1.9 match 38 stars 4.60 score

tvedebrink

dirmult:Estimation in Dirichlet-Multinomial Distribution

Estimate parameters in Dirichlet-Multinomial and compute log-likelihoods.

Maintained by Torben Tvedebrink. Last updated 3 years ago.

1.8 match 4.93 score 194 scripts 17 dependents

billvenables

PolynomF:Polynomials in R

Implements univariate polynomial operations in R, including polynomial arithmetic, finding zeros, plotting, and some operations on lists of polynomials.

Maintained by Bill Venables. Last updated 1 years ago.

cpp

1.9 match 4.54 score 50 scripts 14 dependents

sahirbhatnagar

ggmix:Variable Selection in Linear Mixed Models for SNP Data

Fit penalized multivariable linear mixed models with a single random effect to control for population structure in genetic association studies. The goal is to simultaneously fit many genetic variants at the same time, in order to select markers that are independently associated with the response. Can also handle prior annotation information, for example, rare variants, in the form of variable weights. For more information, see the website below and the accompanying paper: Bhatnagar et al., "Simultaneous SNP selection and adjustment for population structure in high dimensional prediction models", 2020, <DOI:10.1371/journal.pgen.1008766>.

Maintained by Sahir Bhatnagar. Last updated 4 years ago.

1.5 match 10 stars 5.48 score 20 scripts

rensenieuwenhuis

influence.ME:Tools for Detecting Influential Data in Mixed Effects Models

Provides a collection of tools for detecting influential cases in generalized mixed effects models. It analyses models that were estimated using 'lme4'. The basic rationale behind identifying influential data is that when single units are omitted from the data, models based on these data should not produce substantially different estimates. To standardize the assessment of how influential a (single group of) observation(s) is, several measures of influence are common practice, such as Cook's Distance. In addition, we provide a measure of percentage change of the fixed point estimates and a simple procedure to detect changing levels of significance.

Maintained by Rense Nieuwenhuis. Last updated 8 years ago.

3.6 match 2.34 score 172 scripts

matrix-profile-foundation

matrixprofiler:Matrix Profile for R

This is the core functions needed by the 'tsmp' package. The low level and carefully checked mathematical functions are here. These are implementations of the Matrix Profile concept that was created by CS-UCR <http://www.cs.ucr.edu/~eamonn/MatrixProfile.html>.

Maintained by Francisco Bischoff. Last updated 3 years ago.

algorithm matrix-profile rcpp time-series cpp

2.3 match 10 stars 3.70 score 2 scripts

bioc

MANOR:CGH Micro-Array NORmalization

Importation, normalization, visualization, and quality control functions to correct identified sources of variability in array-CGH experiments.

Maintained by Pierre Neuvial. Last updated 3 days ago.

microarray twochannel dataimport qualitycontrol preprocessing copynumbervariation normalization

1.6 match 4.98 score 1 scripts

cran

VCA:Variance Component Analysis

ANOVA and REML estimation of linear mixed models is implemented, once following Searle et al. (1991, ANOVA for unbalanced data), once making use of the 'lme4' package. The primary objective of this package is to perform a variance component analysis (VCA) according to CLSI EP05-A3 guideline "Evaluation of Precision of Quantitative Measurement Procedures" (2014). There are plotting methods for visualization of an experimental design, plotting random effects and residuals. For ANOVA type estimation two methods for computing ANOVA mean squares are implemented (SWEEP and quadratic forms). The covariance matrix of variance components can be derived, which is used in estimating confidence intervals. Linear hypotheses of fixed effects and LS means can be computed. LS means can be computed at specific values of covariables and with custom weighting schemes for factor variables. See ?VCA for a more comprehensive description of the features.

Maintained by Andre Schuetzenmeister. Last updated 1 years ago.

fortran openblas

1.8 match 2 stars 4.51 score 5 dependents

mariusbarth

tinylabels:Lightweight Variable Labels

Assign, extract, or remove variable labels from R vectors. Lightweight and dependency-free.

Maintained by Marius Barth. Last updated 27 days ago.

1.3 match 3 stars 6.26 score 24 scripts 2 dependents

christinaheinze

backShift:Learning Causal Cyclic Graphs from Unknown Shift Interventions

Code for 'backShift', an algorithm to estimate the connectivity matrix of a directed (possibly cyclic) graph with hidden variables. The underlying system is required to be linear and we assume that observations under different shift interventions are available. For more details, see <arXiv:1506.02494>.

Maintained by Christina Heinze-Deml. Last updated 8 years ago.

1.7 match 6 stars 4.48 score 8 scripts

bioc

SCArray:Large-scale single-cell omics data manipulation with GDS files

Provides large-scale single-cell omics data manipulation using Genomic Data Structure (GDS) files. It combines dense and sparse matrices stored in GDS files and the Bioconductor infrastructure framework (SingleCellExperiment and DelayedArray) to provide out-of-memory data storage and large-scale manipulation using the R programming language.

Maintained by Xiuwen Zheng. Last updated 4 months ago.

infrastructure datarepresentation dataimport singlecell rnaseq cpp

1.9 match 1 stars 4.02 score 9 scripts 1 dependents

eddelbuettel

BH:Boost C++ Header Files

Boost provides free peer-reviewed portable C++ source libraries. A large part of Boost is provided as C++ template code which is resolved entirely at compile-time without linking. This package aims to provide the most useful subset of Boost libraries for template use among CRAN packages. By placing these libraries in this package, we offer a more efficient distribution system for CRAN as replication of this code in the sources of other packages is avoided. As of release 1.84.0-0, the following Boost libraries are included: 'accumulators' 'algorithm' 'align' 'any' 'atomic' 'beast' 'bimap' 'bind' 'circular_buffer' 'compute' 'concept' 'config' 'container' 'date_time' 'detail' 'dynamic_bitset' 'exception' 'flyweight' 'foreach' 'functional' 'fusion' 'geometry' 'graph' 'heap' 'icl' 'integer' 'interprocess' 'intrusive' 'io' 'iostreams' 'iterator' 'lambda2' 'math' 'move' 'mp11' 'mpl' 'multiprecision' 'numeric' 'pending' 'phoenix' 'polygon' 'preprocessor' 'process' 'propery_tree' 'qvm' 'random' 'range' 'scope_exit' 'smart_ptr' 'sort' 'spirit' 'tuple' 'type_traits' 'typeof' 'unordered' 'url' 'utility' 'uuid'.

Maintained by Dirk Eddelbuettel. Last updated 3 months ago.

boost c-plus-plus rcpp

0.5 match 86 stars 14.53 score 132 scripts 2.4k dependents

steve-the-bayesian

Boom:Bayesian Object Oriented Modeling

A C++ library for Bayesian modeling, with an emphasis on Markov chain Monte Carlo. Although boom contains a few R utilities (mainly plotting functions), its primary purpose is to install the BOOM C++ library on your system so that other packages can link against it.

Maintained by Steven L. Scott. Last updated 1 years ago.

1.5 match 9 stars 4.82 score 57 scripts 6 dependents

wch

extrafont:Tools for Using Fonts

Tools to using fonts other than the standard PostScript fonts. This package makes it easy to use system TrueType fonts and with PDF or PostScript output files, and with bitmap output files in Windows. extrafont can also be used with fonts packaged specifically to be used with, such as the fontcm package, which has Computer Modern PostScript fonts with math symbols.

Maintained by Winston Chang. Last updated 2 years ago.

0.5 match 324 stars 14.10 score 13k scripts 51 dependents

cran

rcdd:Computational Geometry

R interface to (some of) cddlib (<https://github.com/cddlib/cddlib>). Converts back and forth between two representations of a convex polytope: as solution of a set of linear equalities and inequalities and as convex hull of set of points and rays. Also does linear programming and redundant generator elimination (for example, convex hull in n dimensions). All functions can use exact infinite-precision rational arithmetic.

Maintained by Charles J. Geyer. Last updated 1 years ago.

gmp

1.6 match 4.63 score 35 dependents

raysinensis

colorrepel:Repel Visually Similar Colors for Colorblind Users in Various Plots

Iterate and repel visually similar colors away in various 'ggplot2' plots. When many groups are plotted at the same time on multiple axes, for instance stacked bars or scatter plots, effectively ordering colors becomes difficult. This tool iterates through color combinations to find the best solution to maximize visual distinctness of nearby groups, so plots are more friendly toward colorblind users. This is achieved by two distance measurements, distance between groups within the plot, and CIELAB color space distances between colors as described in Carter et al., (2018) <doi:10.25039/TR.015.2018>.

Maintained by Rui Fu. Last updated 2 months ago.

1.6 match 10 stars 4.48 score 1 scripts

timhesterberg

resampledata3:Data Sets for "Mathematical Statistics with Resampling and R" (3rd Ed)

Data sets for Chihara and Hesterberg (2022, ISBN: 978-1-119-87404-1) "Mathematical Statistics with Resampling in R" (3rd Ed).

Maintained by Tim Hesterberg. Last updated 3 years ago.

4.5 match 1.52 score 33 scripts

stefano-meschiari

latex2exp:Use LaTeX Expressions in Plots

Parses and converts LaTeX math formulas to R's plotmath expressions, used to enter mathematical formulas and symbols to be rendered as text, axis labels, etc. throughout R's plotting system.

Maintained by Stefano Meschiari. Last updated 7 months ago.

ggplot2 latex latex-formulas plotmath-expressions

0.5 match 189 stars 13.04 score 9.7k scripts 45 dependents

ecor

blockmatrix:Tools to Solve Algebraic Systems with Partitioned Matrices

Some elementary matrix algebra tools are implemented to manage block matrices or partitioned matrix, i.e. "matrix of matrices" (http://en.wikipedia.org/wiki/Block_matrix). The block matrix is here defined as a new S3 object. In this package, some methods for "matrix" object are rewritten for "blockmatrix" object. New methods are implemented. This package was created to solve equation systems with block matrices for the analysis of environmental vector time series . Bugs/comments/questions/collaboration of any kind are warmly welcomed.

Maintained by Emanuele Cordano. Last updated 9 years ago.

1.7 match 3.82 score 22 scripts 2 dependents

nimble-dev

nimble:MCMC, Particle Filtering, and Programmable Hierarchical Modeling

A system for writing hierarchical statistical models largely compatible with 'BUGS' and 'JAGS', writing nimbleFunctions to operate models and do basic R-style math, and compiling both models and nimbleFunctions via custom-generated C++. 'NIMBLE' includes default methods for MCMC, Laplace Approximation, Monte Carlo Expectation Maximization, and some other tools. The nimbleFunction system makes it easy to do things like implement new MCMC samplers from R, customize the assignment of samplers to different parts of a model from R, and compile the new samplers automatically via C++ alongside the samplers 'NIMBLE' provides. 'NIMBLE' extends the 'BUGS'/'JAGS' language by making it extensible: New distributions and functions can be added, including as calls to external compiled code. Although most people think of MCMC as the main goal of the 'BUGS'/'JAGS' language for writing models, one can use 'NIMBLE' for writing arbitrary other kinds of model-generic algorithms as well. A full User Manual is available at <https://r-nimble.org>.

Maintained by Christopher Paciorek. Last updated 4 days ago.

bayesian-inference bayesian-methods hierarchical-models mcmc probabilistic-programming openblas cpp

0.5 match 169 stars 12.97 score 2.6k scripts 19 dependents

drg-123

IIS:Datasets to Accompany Wolfe and Schneider - Intuitive Introductory Statistics

These datasets and functions accompany Wolfe and Schneider (2017) - Intuitive Introductory Statistics (ISBN: 978-3-319-56070-0) <doi:10.1007/978-3-319-56072-4>. They are used in the examples throughout the text and in the end-of-chapter exercises. The datasets are meant to cover a broad range of topics in order to appeal to the diverse set of interests and backgrounds typically present in an introductory Statistics class.

Maintained by Grant Schneider. Last updated 1 months ago.

3.8 match 1.74 score 55 scripts

martinrd3d

PCRA:Companion to Portfolio Construction and Risk Analysis

A collection of functions and data sets that support teaching a quantitative finance MS level course on Portfolio Construction and Risk Analysis, and the writing of a textbook for such a course. The package is unique in providing several real-world data sets that may be used for problem assignments and student projects. The data sets include cross-sections of stock data from the Center for Research on Security Prices, LLC (CRSP), corresponding factor exposures data from S&P Global, and several SP500 data sets.

Maintained by Doug Martin. Last updated 2 years ago.

1.8 match 3.67 score 94 scripts

connormayer

maxent.ot:Perform Phonological Analyses using Maximum Entropy Optimality Theory

Fit Maximum Entropy Optimality Theory models to data sets, generate the predictions made by such models for novel data, and compare the fit of different models using a variety of metrics. The package is described in Mayer, C., Tan, A., Zuraw, K. (in press) <https://sites.socsci.uci.edu/~cjmayer/papers/cmayer_et_al_maxent_ot_accepted.pdf>.

Maintained by Connor Mayer. Last updated 4 months ago.

1.1 match 8 stars 5.51 score 6 scripts

cran

SMPracticals:Practicals for Use with Davison (2003) Statistical Models

Contains the datasets and a few functions for use with the practicals outlined in Appendix A of the book Statistical Models (Davison, 2003, Cambridge University Press), which can be found at <doi:10.1017/CBO9780511815850>.

Maintained by Alessandra R. Brazzale. Last updated 1 years ago.

4.0 match 1.48 score 1 dependents

cran

mhsmm:Inference for Hidden Markov and Semi-Markov Models

Parameter estimation and prediction for hidden Markov and semi-Markov models for data with multiple observation sequences. Suitable for equidistant time series data, with multivariate and/or missing data. Allows user defined emission distributions.

Maintained by Jared OConnell. Last updated 2 years ago.

1.6 match 3 stars 3.56 score 2 dependents

msberends

plot2:A Plotting Assistant for Fast 'ggplot2' Visualisations

A streamlined extension of 'ggplot2' designed to simplify and accelerate the creation of data visualisations. 'plot2' automates common tasks such as axis handling, plot type selection, and data transformation, allowing users to create complex, publication-ready plots with minimal code. It integrates seamlessly with the tidyverse and retains full compatibility with 'ggplot2', while offering additional conveniences like enhanced sorting, faceting, and custom theming.

Maintained by Matthijs S. Berends. Last updated 7 days ago.

ggplot2 helper plotting tidyverse

1.3 match 1 stars 4.32 score 8 scripts 1 dependents

lmjl-alea

rgeomstats:Interface to 'Geomstats'

Provides an interface to the Python package 'Geomstats' authored by Miolane et al. (2020) <arXiv:2004.04667>.

Maintained by Aymeric Stamm. Last updated 3 months ago.

1.5 match 4 stars 3.78 score 5 scripts 1 dependents

bioc

MesKit:A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic alterations

MesKit provides commonly used analysis and visualization modules based on mutational data generated by multi-region sequencing (MRS). This package allows to depict mutational profiles, measure heterogeneity within or between tumors from the same patient, track evolutionary dynamics, as well as characterize mutational patterns on different levels. Shiny application was also developed for a need of GUI-based analysis. As a handy tool, MesKit can facilitate the interpretation of tumor heterogeneity and the understanding of evolutionary relationship between regions in MRS study.

Maintained by Mengni Liu. Last updated 5 months ago.

1.2 match 4.73 score 18 scripts 1 dependents

teachinglab

tlShiny:Supplies essential functions to Teaching Lab dashboards

A bunch of random functions I use in developing dashboards Needs to vastly reduce the number of dependencies at the moment.

Maintained by Duncan Gates. Last updated 12 days ago.

1.8 match 3.04 score

yihui

litedown:A Lightweight Version of R Markdown

Render R Markdown to Markdown (without using 'knitr'), and Markdown to lightweight HTML or 'LaTeX' documents with the 'commonmark' package (instead of 'Pandoc'). Some missing Markdown features in 'commonmark' are also supported, such as raw HTML or 'LaTeX' blocks, 'LaTeX' math, superscripts, subscripts, footnotes, element attributes, and appendices, but not all 'Pandoc' Markdown features are (or will be) supported. With additional JavaScript and CSS, you can also create HTML slides and articles. This package can be viewed as a trimmed-down version of R Markdown and 'knitr'. It does not aim at rich Markdown features or a large variety of output formats (the primary formats are HTML and 'LaTeX'). Book and website projects of multiple input documents are also supported.

Maintained by Yihui Xie. Last updated 2 days ago.

litedown markdown r-markdown report-generator reproducible-research

0.5 match 197 stars 10.44 score 16 scripts 3 dependents

inqs909

csucistats:CSU Channel Islands R Tools

An R package containing functions for statistics courses at CSUCI.

Maintained by Isaac Quintanilla Salinas. Last updated 2 months ago.

1.8 match 2.99 score 14 scripts

clobatofern95

GPUmatrix:Basic Linear Algebra with GPU

GPUs are great resources for data analysis, especially in statistics and linear algebra. Unfortunately, very few packages connect R to the GPU, and none of them are transparent enough to run the computations on the GPU without substantial changes to the code. The maintenance of these packages is cumbersome: several of the earlier attempts have been removed from their respective repositories. It would be desirable to have a properly maintained R package that takes advantage of the GPU with minimal changes to the existing code. We have developed the GPUmatrix package (available on CRAN). GPUmatrix mimics the behavior of the Matrix package and extends R to use the GPU for computations. It includes single(FP32) and double(FP64) precision data types, and provides support for sparse matrices. It is easy to learn, and requires very few code changes to perform the operations on the GPU. GPUmatrix relies on either the Torch or Tensorflow R packages to perform the GPU operations. We have demonstrated its usefulness for several statistical applications and machine learning applications: non-negative matrix factorization, logistic regression and general linear models. We have also included a comparison of GPU and CPU performance on different matrix operations.

Maintained by Cesar Lobato-Fernandez. Last updated 1 years ago.

1.3 match 3.93 score 57 scripts 1 dependents

albgarre

FSK2R:An Interface Between the 'FSKX' Standard and 'R'

Functions for importing, creating, editing and exporting 'FSK' files <https://foodrisklabs.bfr.bund.de/fskx-food-safety-knowledge-exchange-format/> using the 'R' programming environment. Furthermore, it enables users to run simulations contained in the 'FSK' files and visualize the results.

Maintained by Alberto Garre. Last updated 3 years ago.

1.8 match 2.70 score 6 scripts

mariushofert

simsalapar:Tools for Simulation Studies in Parallel

Tools for setting up ("design"), conducting, and evaluating large-scale simulation studies with graphics and tables, including parallel computations.

Maintained by Marius Hofert. Last updated 2 years ago.

1.7 match 2 stars 2.91 score 67 scripts 2 dependents

terminological

ggrrr:Addressing Annoyances and Irritations

Visualisation hacks, tabular data helpers, fonts, caching, tidy data functions. It is an swiss army knife, jack of all trades.

Maintained by Robert Challen. Last updated 9 months ago.

1.8 match 1 stars 2.74 score 11 scripts

kmburkett

hapassoc:Inference of Trait Associations with SNP Haplotypes and Other Attributes using the EM Algorithm

The following R functions are used for inference of trait associations with haplotypes and other covariates in generalized linear models. The functions are developed primarily for data collected in cohort or cross-sectional studies. They can accommodate uncertain haplotype phase and handle missing genotypes at some SNPs.

Maintained by K. Burkett. Last updated 3 years ago.

1.6 match 2.98 score 16 scripts

conjugateprior

cbn:Tools and replication materials for Caliskan, Bryson, and Narayanan (2017)

This package allows users to replicate the analysis in the paper and also provides general purpose tools for working with a large word vector file and comparing groups of words with permutation statistics from the original paper. Alternative bootstrapped versions with confidence intervals are also available.

Maintained by Will Lowe. Last updated 6 years ago.

cpp

1.3 match 2 stars 3.48 score 6 scripts

mattkerlogue

shrthnd:Work with data that uses shorthand and symbols

Process character vectors of numerical data that contains non-numeric shorthand and symbols.

Maintained by Matt Kerlogue. Last updated 11 months ago.

1.3 match 2 stars 3.48 score

rwoldford

eikosograms:The Picture of Probability

An eikosogram (ancient Greek for probability picture) divides the unit square into rectangular regions whose areas, sides, and widths, represent various probabilities associated with the values of one or more categorical variates. Rectangle areas are joint probabilities, widths are always marginal (though possibly joint margins, i.e. marginal joint distributions of two or more variates), and heights of rectangles are always conditional probabilities. Eikosograms embed the rules of probability and are useful for introducing elementary probability theory, including axioms, marginal, conditional, and joint probabilities, and their relationships (including Bayes theorem as a completely trivial consequence). They are markedly superior to Venn diagrams for this purpose, especially in distinguishing probabilistic independence, mutually exclusive events, coincident events, and associations. They also are useful for identifying and understanding conditional independence structure. As data analysis tools, eikosograms display categorical data in a manner similar to Mosaic plots, especially when only two variates are involved (the only case in which they are essentially identical, though eikosograms purposely disallow spacing between rectangles). Unlike Mosaic plots, eikosograms do not alternate axes as each new categorical variate (beyond two) is introduced. Instead, only one categorical variate, designated the "response", presents on the vertical axis and all others, designated the "conditioning" variates, appear on the horizontal. In this way, conditional probability appears only as height and marginal probabilities as widths. The eikosogram is therefore much better suited to a response model analysis (e.g. logistic model) than is a Mosaic plot. Mosaic plots are better suited to log-linear style modelling as in discrete multivariate analysis. Of course, eikosograms are also suited to discrete multivariate analysis with each variate in turn appearing as the response. This makes it better suited than Mosaic plots to discrete graphical models based on conditional independence graphs (i.e. "Bayesian Networks" or "BayesNets"). The eikosogram and its superiority to Venn diagrams in teaching probability is described in W.H. Cherry and R.W. Oldford (2003) <https://math.uwaterloo.ca/~rwoldfor/papers/eikosograms/paper.pdf>, its value in exploring conditional independence structure and relation to graphical and log-linear models is described in R.W. Oldford (2003) <https://math.uwaterloo.ca/~rwoldfor/papers/eikosograms/independence/paper.pdf>, and a number of problems, puzzles, and paradoxes that are easily explained with eikosograms are given in R.W. Oldford (2003) <https://math.uwaterloo.ca/~rwoldfor/papers/eikosograms/examples/paper.pdf>.

Maintained by Wayne Oldford. Last updated 6 years ago.

0.9 match 4 stars 4.92 score 14 scripts

ekstroem

isdals:Datasets for Introduction to Statistical Data Analysis for the Life Sciences

Provides datasets for the book "Introduction to Statistical Data Analysis for the Life Sciences, Second edition" by Ekstrøm and Sørensen (2014).

Maintained by Claus Ekstrom. Last updated 2 years ago.

1.6 match 2.51 score 108 scripts 1 dependents

cran

OEFPIL:Optimal Estimation of Function Parameters by Iterated Linearization

Package for estimating the parameters of a nonlinear function using iterated linearization via Taylor series. Method is based on Kubáček (2000) ISBN: 80-244-0093-6. The algorithm is a generalization of the procedure given in Köning, R., Wimmer, G. and Witkovský, V. (2014) <doi:10.1088/0957-0233/25/11/115001>.

Maintained by Stanislav Zamecnik. Last updated 3 years ago.

2.4 match 1.70 score

nmatzke

rexpokit:R Wrappers for EXPOKIT; Other Matrix Functions

Wraps some of the matrix exponentiation utilities from EXPOKIT (<http://www.maths.uq.edu.au/expokit/>), a FORTRAN library that is widely recommended for matrix exponentiation (Sidje RB, 1998. "Expokit: A Software Package for Computing Matrix Exponentials." ACM Trans. Math. Softw. 24(1): 130-156). EXPOKIT includes functions for exponentiating both small, dense matrices, and large, sparse matrices (in sparse matrices, most of the cells have value 0). Rapid matrix exponentiation is useful in phylogenetics when we have a large number of states (as we do when we are inferring the history of transitions between the possible geographic ranges of a species), but is probably useful in other ways as well. NOTE: In case FORTRAN checks temporarily get rexpokit archived on CRAN, see archived binaries at GitHub in: nmatzke/Matzke_R_binaries (binaries install without compilation of source code).

Maintained by Nicholas J. Matzke. Last updated 9 months ago.

fortran openblas cpp

0.8 match 1 stars 3.99 score 194 scripts

ardata-fr

equatags:Equations to 'XML'

Provides function to transform latex math expressions into format 'HTML' or 'Office Open XML Math'. The 'XML' result can then be included in 'HTML', 'Microsoft Word' documents or 'Microsoft PowerPoint' presentations by using a 'Markdown' document or the R package 'officer'.

Maintained by David Gohel. Last updated 10 months ago.

0.8 match 8 stars 3.81 score 6 scripts

f0nzie

rODE:Ordinary Differential Equation (ODE) Solvers Written in R Using S4 Classes

Show physics, math and engineering students how an ODE solver is made and how effective R classes can be for the construction of the equations that describe natural phenomena. Inspiration for this work comes from the book on "Computer Simulations in Physics" by Harvey Gould, Jan Tobochnik, and Wolfgang Christian. Book link: <http://www.compadre.org/osp/items/detail.cfm?ID=7375>.

Maintained by Alfonso R. Reyes. Last updated 7 years ago.

0.5 match 5.50 score 71 scripts

michaelstats

waved:Wavelet Deconvolution

Makes available code necessary to reproduce figures and tables in papers on the WaveD method for wavelet deconvolution of noisy signals as presented in The WaveD Transform in R, Journal of Statistical Software Volume 21, No. 3, 2007.

Maintained by Michael Stewart. Last updated 1 years ago.

1.6 match 1.72 score 52 scripts

cotima

CoTiMA:Continuous Time Meta-Analysis ('CoTiMA')

The 'CoTiMA' package performs meta-analyses of correlation matrices of repeatedly measured variables taken from studies that used different time intervals. Different time intervals between measurement occasions impose problems for meta-analyses because the effects (e.g. cross-lagged effects) cannot be simply aggregated, for example, by means of common fixed or random effects analysis. However, continuous time math, which is applied in 'CoTiMA', can be used to extrapolate or intrapolate the results from all studies to any desired time lag. By this, effects obtained in studies that used different time intervals can be meta-analyzed. 'CoTiMA' fits models to empirical data using the structural equation model (SEM) package 'ctsem', the effects specified in a SEM are related to parameters that are not directly included in the model (i.e., continuous time parameters; together, they represent the continuous time structural equation model, CTSEM). Statistical model comparisons and significance tests are then performed on the continuous time parameter estimates. 'CoTiMA' also allows analysis of publication bias (Egger's test, PET-PEESE estimates, zcurve analysis etc.) and analysis of statistical power (post hoc power, required sample sizes). See Dormann, C., Guthier, C., & Cortina, J. M. (2019) <doi:10.1177/1094428119847277>. and Guthier, C., Dormann, C., & Voelkle, M. C. (2020) <doi:10.1037/bul0000304>.

Maintained by Markus Homberg. Last updated 2 months ago.

0.5 match 4 stars 5.28 score

cran

TraceAssist:Nonparametric Trace Regression via Sign Series Representation

Efficient method for fitting nonparametric matrix trace regression model. The detailed description can be found in C. Lee, L. Li, H. Zhang, and M. Wang (2021). Nonparametric Trace Regression via Sign Series Representation. <arXiv:2105.01783>. The method employs the aggregation of structured sign series for trace regression (ASSIST) algorithm.

Maintained by Chanwoo Lee. Last updated 4 years ago.

1.6 match 1.70 score

cran

BCBCSF:Bias-Corrected Bayesian Classification with Selected Features

Fully Bayesian Classification with a subset of high-dimensional features, such as expression levels of genes. The data are modeled with a hierarchical Bayesian models using heavy-tailed t distributions as priors. When a large number of features are available, one may like to select only a subset of features to use, typically those features strongly correlated with the response in training cases. Such a feature selection procedure is however invalid since the relationship between the response and the features has be exaggerated by feature selection. This package provides a way to avoid this bias and yield better-calibrated predictions for future cases when one uses F-statistic to select features.

Maintained by Longhai Li. Last updated 9 years ago.

1.8 match 1.48 score 1 dependents

cran

USP:U-Statistic Permutation Tests of Independence for all Data Types

Implements various independence tests for discrete, continuous, and infinite-dimensional data. The tests are based on a U-statistic permutation test, the USP of Berrett, Kontoyiannis and Samworth (2020) <arXiv:2001.05513>, and shown to be minimax rate optimal in a wide range of settings. As the permutation principle is used, all tests have exact, non-asymptotic Type I error control at the nominal level.

Maintained by Thomas B. Berrett. Last updated 4 years ago.

1.6 match 1.60 score

ujjwal4culs

WCM:Water Cloud Model (WCM) for the Simulation of Leaf Area Index (LAI) and Soil Moisture (SM) from Microwave Backscattering

Retrieval the leaf area index (LAI) and soil moisture (SM) from microwave backscattering data using water cloud model (WCM) model . The WCM algorithm attributed to Pervot et al.(1993) <doi:10.1016/0034-4257(93)90053-Z>. The authors are grateful to SAC, ISRO, Ahmedabad for providing financial support to Dr. Prashant K Srivastava to conduct this research work.

Maintained by Ujjwal Singh. Last updated 5 years ago.

1.5 match 4 stars 1.60 score

yrobink

ROOPSD:R Object Oriented Programming for Statistical Distribution

Statistical distribution in OOP (Object Oriented Programming) way. This package proposes a R6 class interface to classic statistical distribution, and new distributions can be easily added with the class AbstractDist. A useful point is the generic fit() method for each class, which uses a maximum likelihood estimation to find the parameters of a dataset, see, e.g. Hastie, T. and al (2009) <isbn:978-0-387-84857-0>. Furthermore, the rv_histogram class gives a non-parametric fit, with the same accessors that for the classic distribution. Finally, three random generators useful to build synthetic data are given: a multivariate normal generator, an orthogonal matrix generator, and a symmetric positive definite matrix generator, see Mezzadri, F. (2007) <arXiv:math-ph/0609050>.

Maintained by Yoann Robin. Last updated 2 years ago.

0.5 match 1 stars 4.49 score 5 scripts 12 dependents

ropensci

postdoc:Minimal and Uncluttered Package Documentation

Generates simple and beautiful one-page HTML reference manuals with package documentation. Math rendering and syntax highlighting are done server-side in R such that no JavaScript libraries are needed in the browser, which makes the documentation portable and fast to load.

Maintained by Jeroen Ooms. Last updated 6 months ago.

0.5 match 11 stars 4.22 score 2 scripts

lmjl-alea

midi:Microstructure Information from Diffusion Imaging

An implementation of a taxonomy of models of restricted diffusion in biological tissues parametrized by the tissue geometry (axis, diameter, density, etc.). This is primarily used in the context of diffusion magnetic resonance (MR) imaging to model the MR signal attenuation in the presence of diffusion gradients. The goal is to provide tools to simulate the MR signal attenuation predicted by these models under different experimental conditions. The package feeds a companion 'shiny' app available at <https://midi-pastrami.apps.math.cnrs.fr> that serves as a graphical interface to the models and tools provided by the package. Models currently available are the ones in Neuman (1974) <doi:10.1063/1.1680931>, Van Gelderen et al. (1994) <doi:10.1006/jmrb.1994.1038>, Stanisz et al. (1997) <doi:10.1002/mrm.1910370115>, Soderman & Jonsson (1995) <doi:10.1006/jmra.1995.0014> and Callaghan (1995) <doi:10.1006/jmra.1995.1055>.

Maintained by Aymeric Stamm. Last updated 10 months ago.

0.5 match 1 stars 3.72 score 13 scripts

mavrogiannis-ioannis

dsmmR:Estimation and Simulation of Drifting Semi-Markov Models

Performs parametric and non-parametric estimation and simulation of drifting semi-Markov processes. The definition of parametric and non-parametric model specifications is also possible. Furthermore, three different types of drifting semi-Markov models are considered. These models differ in the number of transition matrices and sojourn time distributions used for the computation of a number of semi-Markov kernels, which in turn characterize the drifting semi-Markov kernel. For the parametric model estimation and specification, several discrete distributions are considered for the sojourn times: Uniform, Poisson, Geometric, Discrete Weibull and Negative Binomial. The non-parametric model specification makes no assumptions about the shape of the sojourn time distributions. Semi-Markov models are described in: Barbu, V.S., Limnios, N. (2008) <doi:10.1007/978-0-387-73173-5>. Drifting Markov models are described in: Vergne, N. (2008) <doi:10.2202/1544-6115.1326>. Reliability indicators of Drifting Markov models are described in: Barbu, V. S., Vergne, N. (2019) <doi:10.1007/s11009-018-9682-8>. We acknowledge the DATALAB Project <https://lmrs-num.math.cnrs.fr/projet-datalab.html> (financed by the European Union with the European Regional Development fund (ERDF) and by the Normandy Region) and the HSMM-INCA Project (financed by the French Agence Nationale de la Recherche (ANR) under grant ANR-21-CE40-0005).

Maintained by Ioannis Mavrogiannis. Last updated 7 months ago.

0.5 match 3.70 score 7 scripts

hrryt

minesweeper:Play Minesweeper

Play and record games of minesweeper using a graphics device that supports event handling. Replay recorded games and save GIF animations of them. Based on classic minesweeper as detailed by Crow P. (1997) <https://minesweepergame.com/math/a-mathematical-introduction-to-the-game-of-minesweeper-1997.pdf>.

Maintained by Harry Thompson. Last updated 4 months ago.

0.5 match 3.30 score 1 scripts

stla

braids:The Braid Groups

Deals with the braid groups. Includes creation of some specific braids, group operations, free reduction, and Bronfman polynomials. Braid theory has applications in fluid mechanics and quantum physics. The code is adapted from the 'Haskell' library 'combinat', and is based on Birman and Brendle (2005) <doi:10.48550/arXiv.math/0409205>.

Maintained by Stéphane Laurent. Last updated 11 months ago.

braid-groups

0.5 match 3.30 score

havishaj

Greymodels:Shiny App for Grey Forecasting Model

The 'Greymodels' Shiny app is an interactive interface for statistical modelling and forecasting using grey-based models. It covers several state-of-the-art univariate and multivariate grey models. A user friendly interface allows users to easily compare the performance of different models for prediction and among others, visualize graphical plots of predicted values within user chosen confidence intervals. Chang, C. (2019) <doi:10.24818/18423264/53.1.19.11>, Li, K., Zhang, T. (2019) <doi:10.1007/s12667-019-00344-0>, Ou, S. (2012) <doi:10.1016/j.compag.2012.03.007>, Li, S., Zhou, M., Meng, W., Zhou, W. (2019) <doi:10.1080/23307706.2019.1666310>, Xie, N., Liu, S. (2009) <doi:10.1016/j.apm.2008.01.011>, Shao, Y., Su, H. (2012) <doi:10.1016/j.aasri.2012.06.003>, Xie, N., Liu, S., Yang, Y., Yuan, C. (2013) <doi:10.1016/j.apm.2012.10.037>, Li, S., Miao, Y., Li, G., Ikram, M. (2020) <doi:10.1016/j.matcom.2019.12.020>, Che, X., Luo, Y., He, Z. (2013) <doi:10.4028/www.scientific.net/AMM.364.207>, Zhu, J., Xu, Y., Leng, H., Tang, H., Gong, H., Zhang, Z. (2016) <doi:10.1109/appeec.2016.7779929>, Luo, Y., Liao, D. (2012) <doi:10.4028/www.scientific.net/AMR.507.265>, Bilgil, H. (2020) <doi:10.3934/math.2021091>, Li, D., Chang, C., Chen, W., Chen, C. (2011) <doi:10.1016/j.apm.2011.04.006>, Chen, C. (2008) <doi:10.1016/j.chaos.2006.08.024>, Zhou, W., Pei, L. (2020) <doi:10.1007/s00500-019-04248-0>, Xiao, X., Duan, H. (2020) <doi:10.1016/j.engappai.2019.103350>, Xu, N., Dang, Y. (2015) <doi:10.1155/2015/606707>, Chen, P., Yu, H.(2014) <doi:10.1155/2014/242809>, Zeng, B., Li, S., Meng, W., Zhang, D. (2019) <doi:10.1371/journal.pone.0221333>, Liu, L., Wu, L. (2021) <doi:10.1016/j.apm.2020.08.080>, Hu, Y. (2020) <doi:10.1007/s00500-020-04765-3>, Zhou, P., Ang, B., Poh, K. (2006) <doi:10.1016/j.energy.2005.12.002>, Cheng, M., Li, J., Liu, Y., Liu, B. (2020) <doi:10.3390/su12020698>, Wang, H., Wang, P., Senel, M., Li, T. (2019) <doi:10.1155/2019/9049815>, Ding, S., Li, R. (2020) <doi:10.1155/2020/4564653>, Zeng, B., Li, C. (2018) <doi:10.1016/j.cie.2018.02.042>, Xie, N., Liu, S. (2015) <doi:10.1109/JSEE.2015.00013>, Zeng, X., Yan, S., He, F., Shi, Y. (2019) <doi:10.1016/j.apm.2019.11.032>.

Maintained by Jahajeeah Havisha. Last updated 2 years ago.

0.5 match 4 stars 3.30 score

dkahle

latte:Interface to 'LattE' and '4ti2'

Back-end connections to 'LattE' (<https://www.math.ucdavis.edu/~latte>) for counting lattice points and integration inside convex polytopes and '4ti2' (<http://www.4ti2.de/>) for algebraic, geometric, and combinatorial problems on linear spaces and front-end tools facilitating their use in the 'R' ecosystem.

Maintained by David Kahle. Last updated 2 years ago.

0.5 match 3 stars 3.18 score 1 scripts

crohlo

BEND:Bayesian Estimation of Nonlinear Data (BEND)

Provides a set of models to estimate nonlinear longitudinal data using Bayesian estimation methods. These models include the: 1) Bayesian Piecewise Random Effects Model (Bayes_PREM()) which estimates a piecewise random effects (mixture) model for a given number of latent classes and a latent number of possible changepoints in each class, and can incorporate class and outcome predictive covariates (see Lamm (2022) <https://hdl.handle.net/11299/252533> and Lock et al., (2018) <doi:10.1007/s11336-017-9594-5>), 2) Bayesian Crossed Random Effects Model (Bayes_CREM()) which estimates a linear, quadratic, exponential, or piecewise crossed random effects models where individuals are changing groups over time (e.g., students and schools; see Rohloff et al., (2024) <doi:10.1111/bmsp.12334>), and 3) Bayesian Bivariate Piecewise Random Effects Model (Bayes_BPREM()) which estimates a bivariate piecewise random effects model to jointly model two related outcomes (e.g., reading and math achievement; see Peralta et al., (2022) <doi:10.1037/met0000358>).

Maintained by Corissa T. Rohloff. Last updated 12 months ago.

jags cpp

0.5 match 3.18 score

cran

TP.idm:Estimation of Transition Probabilities for the Illness-Death Model

Estimation of transition probabilities for the illness-death model. Both the Aalen-Johansen estimator for a Markov model and a novel non-Markovian estimator by de Una-Alvarez and Meira-Machado (2015) <doi:10.1111/biom.12288>, see also Balboa and de Una-Alvarez (2018) <doi:10.18637/jss.v083.i10>, are included.

Maintained by Vanesa Balboa-Barreiro. Last updated 2 years ago.

1.6 match 1.00 score 7 scripts

cran

sudoku:Sudoku Puzzle Generator and Solver

Generates, plays, and solves Sudoku puzzles. The GUI playSudoku() needs package "tkrplot" if you are not on Windows.

Maintained by David Brahm. Last updated 3 years ago.

1.6 match 1.00 score

somenath24

TransP:Implementation of Transportation Problem Algorithm

Implementation of two transportation problem algorithms. 1. North West Corner Method 2. Minimum Cost Method or Least cost method. For more technical details about the algorithms please refer below URLs. <http://www.universalteacherpublications.com/univ/ebooks/or/Ch5/nw.htm>. <http://personal.maths.surrey.ac.uk/st/J.F/chapter7.pdf>.

Maintained by Somenath Sit. Last updated 7 years ago.

0.5 match 2 stars 3.00 score 3 scripts

1vbutkus

pvar:Calculation and Application of p-Variation

The calculation of p-variation of the finite sample data. This package is a realisation of the procedure described in Butkus, V. & Norvaisa, R. Lith Math J (2018). <doi: 10.1007/s10986-018-9414-3> The formal definitions and reference into literature are given in vignette.

Maintained by Vygantas Butkus. Last updated 2 years ago.

cpp

0.5 match 2.74 score 11 scripts