R-universe search: pdf

ropensci

pdftools:Text Extraction, Rendering and Converting of PDF Documents

Utilities based on 'libpoppler' <https://poppler.freedesktop.org> for extracting text, fonts, attachments and metadata from a PDF file. Also supports high quality rendering of PDF documents into PNG, JPEG, TIFF format, or into raw bitmap vectors for further processing in R.

Maintained by Jeroen Ooms. Last updated 25 days ago.

pdf-files pdf-format pdftools poppler poppler-library text-extraction cpp

23.0 match 529 stars 13.10 score 3.3k scripts 47 dependents

pridiltal

staplr:A Toolkit for PDF Files

Provides functions to manipulate PDF files: fill out PDF forms; merge multiple PDF files into one; remove selected pages from a file; rename multiple files in a directory; rotate entire pdf document; rotate selected pages of a pdf file; Select pages from a file; splits single input PDF document into individual pages; splits single input PDF document into parts from given points.

Maintained by Priyanga Dilini Talagala. Last updated 1 years ago.

pdf pdftk toolkit openjdk

31.6 match 267 stars 7.31 score 36 scripts 2 dependents

ropensci

tabulapdf:Extract Tables from PDF Documents

Bindings for the 'Tabula' <https://tabula.technology/> 'Java' library, which can extract tables from PDF files. This tool can reduce time and effort in data extraction processes in fields like investigative journalism. It allows for automatic and manual table extraction, the latter facilitated through a 'Shiny' interface, enabling manual areas selection\ with a computer mouse for data retrieval.

Maintained by Mauricio Vargas Sepulveda. Last updated 3 months ago.

java pdf pdf-document peer-reviewed ropensci tabula tabular-data openjdk

22.1 match 552 stars 10.07 score 159 scripts 1 dependents

raphaelhartmann

ream:Density, Distribution, and Sampling Functions for Evidence Accumulation Models

Calculate the probability density functions (PDFs) for two threshold evidence accumulation models (EAMs). These are defined using the following Stochastic Differential Equation (SDE), dx(t) = v(x(t),t)*dt+D(x(t),t)*dW, where x(t) is the accumulated evidence at time t, v(x(t),t) is the drift rate, D(x(t),t) is the noise scale, and W is the standard Wiener process. The boundary conditions of this process are the upper and lower decision thresholds, represented by b_u(t) and b_l(t), respectively. Upper threshold b_u(t) > 0, while lower threshold b_l(t) < 0. The initial condition of this process x(0) = z where b_l(t) < z < b_u(t). We represent this as the relative start point w = z/(b_u(0)-b_l(0)), defined as a ratio of the initial threshold location. This package generates the PDF using the same approach as the 'python' package it is based upon, 'PyBEAM' by Murrow and Holmes (2023) <doi:10.3758/s13428-023-02162-w>. First, it converts the SDE model into the forwards Fokker-Planck equation dp(x,t)/dt = d(v(x,t)*p(x,t))/dt-0.5*d^2(D(x,t)^2*p(x,t))/dx^2, then solves this equation using the Crank-Nicolson method to determine p(x,t). Finally, it calculates the flux at the decision thresholds, f_i(t) = 0.5*d(D(x,t)^2*p(x,t))/dx evaluated at x = b_i(t), where i is the relevant decision threshold, either upper (i = u) or lower (i = l). The flux at each thresholds f_i(t) is the PDF for each threshold, specifically its PDF. We discuss further details of this approach in this package and 'PyBEAM' publications. Additionally, one can calculate the cumulative distribution functions of and sampling from the EAMs.

Maintained by Raphael Hartmann. Last updated 2 months ago.

cpp

37.4 match 2 stars 5.04 score 2 scripts

brentthorne

posterdown:Generate PDF Conference Posters Using R Markdown

Use 'rmarkdown' and 'pagedown' to generate HTML and PDF conference posters.

Maintained by Brent Thorne. Last updated 5 years ago.

conference-poster css html pdf pdf-poster poster rmarkdown rstudio typesetting

21.9 match 859 stars 7.54 score 10 scripts

pachadotdev

cpp11qpdf:Split, Combine and Compress PDF Files

Bindings to 'qpdf': 'qpdf' (<https://qpdf.sourceforge.io/>) is a an open-source PDF rendering library that allows to conduct content-preserving transformations of PDF files such as split, combine, and compress PDF files.

Maintained by Mauricio Vargas Sepulveda. Last updated 3 months ago.

libjpeg-turbo zlib cpp

28.9 match 3 stars 5.56 score 4 scripts

mmaechler

sfsmisc:Utilities from 'Seminar fuer Statistik' ETH Zurich

Useful utilities ['goodies'] from Seminar fuer Statistik ETH Zurich, some of which were ported from S-plus in the 1990s. For graphics, have pretty (Log-scale) axes eaxis(), an enhanced Tukey-Anscombe plot, combining histogram and boxplot, 2d-residual plots, a 'tachoPlot()', pretty arrows, etc. For robustness, have a robust F test and robust range(). For system support, notably on Linux, provides 'Sys.*()' functions with more access to system and CPU information. Finally, miscellaneous utilities such as simple efficient prime numbers, integer codes, Duplicated(), toLatex.numeric() and is.whole().

Maintained by Martin Maechler. Last updated 5 months ago.

14.5 match 11 stars 10.85 score 566 scripts 119 dependents

hughjonesd

huxtable:Easily Create and Style Tables for LaTeX, HTML and Other Formats

Creates styled tables for data presentation. Export to HTML, LaTeX, RTF, 'Word', 'Excel', and 'PowerPoint'. Simple, modern interface to manipulate borders, size, position, captions, colours, text styles and number formatting. Table cells can span multiple rows and/or columns. Includes a 'huxreg' function for creation of regression tables, and 'quick_*' one-liners to print data to a new document.

Maintained by David Hugh-Jones. Last updated 24 days ago.

html huxtable latex microsoft-word powerpoint reproducible-research tables

10.7 match 323 stars 13.93 score 1.9k scripts 16 dependents

rstudio

pagedown:Paginate the HTML Output of R Markdown with CSS for Print

Use the paged media properties in CSS and the JavaScript library 'paged.js' to split the content of an HTML document into discrete pages. Each page can have its page size, page numbers, margin boxes, and running headers, etc. Applications of this package include books, letters, reports, papers, business cards, resumes, and posters.

Maintained by Yihui Xie. Last updated 3 months ago.

css html paged-media pdf printing typesetting

12.7 match 909 stars 11.73 score 350 scripts 19 dependents

rtdists

fddm:Fast Implementation of the Diffusion Decision Model

Provides the probability density function (PDF), cumulative distribution function (CDF), the first-order and second-order partial derivatives of the PDF, and a fitting function for the diffusion decision model (DDM; e.g., Ratcliff & McKoon, 2008, <doi:10.1162/neco.2008.12-06-420>) with across-trial variability in the drift rate. Because the PDF, its partial derivatives, and the CDF of the DDM both contain an infinite sum, they need to be approximated. 'fddm' implements all published approximations (Navarro & Fuss, 2009, <doi:10.1016/j.jmp.2009.02.003>; Gondan, Blurton, & Kesselmeier, 2014, <doi:10.1016/j.jmp.2014.05.002>; Blurton, Kesselmeier, & Gondan, 2017, <doi:10.1016/j.jmp.2016.11.003>; Hartmann & Klauer, 2021, <doi:10.1016/j.jmp.2021.102550>) plus new approximations. All approximations are implemented purely in 'C++' providing faster speed than existing packages.

Maintained by Henrik Singmann. Last updated 8 months ago.

cpp

20.5 match 14 stars 6.24 score 2 scripts

lebebr01

pdfsearch:Search Tools for PDF Files

Includes functions for keyword search of pdf files. There is also a wrapper that includes searching of all files within a single directory.

Maintained by Brandon LeBeau. Last updated 3 years ago.

keyword pdf

20.3 match 40 stars 5.85 score 35 scripts

ropensci

rcrossref:Client for Various 'CrossRef' 'APIs'

Client for various 'CrossRef' 'APIs', including 'metadata' search with their old and newer search 'APIs', get 'citations' in various formats (including 'bibtex', 'citeproc-json', 'rdf-xml', etc.), convert 'DOIs' to 'PMIDs', and 'vice versa', get citations for 'DOIs', and get links to full text of articles when available.

Maintained by Najko Jahn. Last updated 2 years ago.

text-ming literature pdf xml publications citations full-text tdm crossref api api-wrapper crossref-api doi metadata

11.0 match 171 stars 10.15 score 404 scripts 10 dependents

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

13.3 match 190 stars 8.31 score 2 scripts 2 dependents

frankportman

bayesAB:Fast Bayesian Methods for AB Testing

A suite of functions that allow the user to analyze A/B test data in a Bayesian framework. Intended to be a drop-in replacement for common frequentist hypothesis test such as the t-test and chi-sq test.

Maintained by Frank Portman. Last updated 4 years ago.

ab-testing bayesian-methods bayesian-tests cpp

14.7 match 308 stars 7.43 score 88 scripts

rstudio

rmarkdown:Dynamic Documents for R

Convert R Markdown documents into a variety of formats.

Maintained by Yihui Xie. Last updated 5 months ago.

literate-programming markdown pandoc rmarkdown

4.9 match 2.9k stars 21.79 score 14k scripts 3.7k dependents

calvinmfloyd

grobblR:Creating Flexible, Reproducible 'PDF' Reports

A tool which allows users the ability to intuitively create flexible, reproducible portable document format reports comprised of aesthetically pleasing tables, images, plots and/or text.

Maintained by Calvin Floyd. Last updated 7 months ago.

grob pdf

17.3 match 40 stars 6.06 score 19 scripts

kwb-r

kwb.utils:General Utility Functions Developed at KWB

This package contains some small helper functions that aim at improving the quality of code developed at Kompetenzzentrum Wasser gGmbH (KWB).

Maintained by Hauke Sonnenberg. Last updated 1 years ago.

13.8 match 8 stars 7.33 score 12 scripts 78 dependents

brry

berryFunctions:Function Collection Related to Plotting and Hydrology

Draw horizontal histograms, color scattered points by 3rd dimension, enhance date- and log-axis plots, zoom in X11 graphics, trace errors and warnings, use the unit hydrograph in a linear storage cascade, convert lists to data.frames and arrays, fit multiple functions.

Maintained by Berry Boessenkool. Last updated 2 months ago.

10.7 match 13 stars 9.43 score 350 scripts 16 dependents

usepa

tcpl:ToxCast Data Analysis Pipeline

The ToxCast Data Analysis Pipeline ('tcpl') is an R package that manages, curve-fits, plots, and stores ToxCast data to populate its linked MySQL database, 'invitrodb'. The package was developed for the chemical screening data curated by the US EPA's Toxicity Forecaster (ToxCast) program, but 'tcpl' can be used to support diverse chemical screening efforts.

Maintained by Jason Brown. Last updated 9 days ago.

ccte comptox ord

10.7 match 36 stars 9.39 score 90 scripts

rnuske

komaletter:Simply Beautiful PDF Letters from Markdown

Write beautiful yet customizable letters in R Markdown and directly obtain the finished PDF. Smooth generation of PDFs is realized by 'rmarkdown', the 'pandoc-letter' template and the 'KOMA-Script' letter class. 'KOMA-Script' provides enhanced replacements for the standard 'LaTeX' classes with emphasis on typography and versatility. 'KOMA-Script' is particularly useful for international writers as it handles various paper formats well, provides layouts for many common window envelope types (e.g. German, US, French, Japanese) and lets you define your own layouts. The package comes with a default letter layout based on 'DIN 5008B'.

Maintained by Robert Nuske. Last updated 10 months ago.

koma-script latex letter markdown pandoc pandoc-letter pdf

14.5 match 87 stars 6.78 score 3 scripts

ropensci

hoardr:Manage Cached Files

Suite of tools for managing cached files, targeting use in other R packages. Uses 'rappdirs' for cross-platform paths. Provides utilities to manage cache directories, including targeting files by path or by key; cached directories can be compressed and uncompressed easily to save disk space.

Maintained by Tamás Stirling. Last updated 2 months ago.

caching data files xml pdf

11.0 match 25 stars 8.38 score 6 scripts 37 dependents

trevorld

pnpmisc:Utilities for Print-and-Play Board Games

Utilities for print-and-play board games.

Maintained by Trevor L. Davis. Last updated 25 days ago.

print-and-play

30.3 match 3.02 score 1 dependents

yihui

knitr:A General-Purpose Package for Dynamic Report Generation in R

Provides a general-purpose tool for dynamic report generation in R using Literate Programming techniques.

Maintained by Yihui Xie. Last updated 12 days ago.

dynamic-documents knitr literate-programming rmarkdown sweave

3.7 match 2.4k stars 23.61 score 116k scripts 4.2k dependents

alexpghayes

distributions3:Probability Distributions as S3 Objects

Tools to create and manipulate probability distributions using S3. Generics pdf(), cdf(), quantile(), and random() provide replacements for base R's d/p/q/r style functions. Functions and arguments have been named carefully to minimize confusion for students in intro stats courses. The documentation for each distribution contains detailed mathematical notes.

Maintained by Alex Hayes. Last updated 6 months ago.

7.6 match 102 stars 11.35 score 118 scripts 7 dependents

trevorld

xmpdf:Edit 'XMP' Metadata and 'PDF' Bookmarks and Documentation Info

Edit 'XMP' metadata <https://en.wikipedia.org/wiki/Extensible_Metadata_Platform> in a variety of media file formats as well as edit bookmarks (aka outline aka table of contents) and documentation info entries in 'pdf' files. Can detect and use a variety of command-line tools to perform these operations such as 'exiftool' <https://exiftool.org/>, 'ghostscript' <https://www.ghostscript.com/>, and/or 'pdftk' <https://gitlab.com/pdftk-java/pdftk>.

Maintained by Trevor L Davis. Last updated 12 months ago.

16.6 match 4 stars 5.08 score 1 scripts 1 dependents

afialkowski

SimMultiCorrData:Simulation of Correlated Data with Multiple Variable Types

Generate continuous (normal or non-normal), binary, ordinal, and count (Poisson or Negative Binomial) variables with a specified correlation matrix. It can also produce a single continuous variable. This package can be used to simulate data sets that mimic real-world situations (i.e. clinical or genetic data sets, plasmodes). All variables are generated from standard normal variables with an imposed intermediate correlation matrix. Continuous variables are simulated by specifying mean, variance, skewness, standardized kurtosis, and fifth and sixth standardized cumulants using either Fleishman's third-order (<DOI:10.1007/BF02293811>) or Headrick's fifth-order (<DOI:10.1016/S0167-9473(02)00072-5>) polynomial transformation. Binary and ordinal variables are simulated using a modification of the ordsample() function from 'GenOrd'. Count variables are simulated using the inverse cdf method. There are two simulation pathways which differ primarily according to the calculation of the intermediate correlation matrix. In Correlation Method 1, the intercorrelations involving count variables are determined using a simulation based, logarithmic correlation correction (adapting Yahav and Shmueli's 2012 method, <DOI:10.1002/asmb.901>). In Correlation Method 2, the count variables are treated as ordinal (adapting Barbiero and Ferrari's 2015 modification of GenOrd, <DOI:10.1002/asmb.2072>). There is an optional error loop that corrects the final correlation matrix to be within a user-specified precision value of the target matrix. The package also includes functions to calculate standardized cumulants for theoretical distributions or from real data sets, check if a target correlation matrix is within the possible correlation bounds (given the distributions of the simulated variables), summarize results (numerically or graphically), to verify valid power method pdfs, and to calculate lower standardized kurtosis bounds.

Maintained by Allison Cynthia Fialkowski. Last updated 7 years ago.

11.0 match 12 stars 7.58 score 44 scripts 6 dependents

bergsmat

latexpdf:Convert Tables to PDF or PNG

Converts table-like objects to stand-alone PDF or PNG. Can be used to embed tables and arbitrary content in PDF or Word documents. Provides a low-level R interface for creating 'LaTeX' code, e.g. command() and a high-level interface for creating PDF documents, e.g. as.pdf.data.frame(). Extensive customization is available via mid-level functions, e.g. as.tabular(). See also 'package?latexpdf'. Support for PNG is experimental; see 'as.png.data.frame'. Adapted from 'metrumrg' <https://r-forge.r-project.org/R/?group_id=1215>. Requires a compatible installation of 'pdflatex', e.g. <https://miktex.org/>.

Maintained by Tim Bergsma. Last updated 5 months ago.

15.0 match 1 stars 5.52 score 106 scripts 4 dependents

bioc

regionReport:Generate HTML or PDF reports for a set of genomic regions or DESeq2/edgeR results

Generate HTML or PDF reports to explore a set of regions such as the results from annotation-agnostic expression analysis of RNA-seq data at base-pair resolution performed by derfinder. You can also create reports for DESeq2 or edgeR results.

Maintained by Leonardo Collado-Torres. Last updated 2 months ago.

differentialexpression sequencing rnaseq software visualization transcription coverage reportwriting differentialmethylation differentialpeakcalling immunooncology qualitycontrol bioconductor derfinder deseq2 edger regionreport rmarkdown

10.1 match 9 stars 7.22 score 46 scripts

zumbov2

findR:Find Code Snippets, R Scripts, R Markdown, PDF and Text Files with Pattern Matching

Scans all directories and subdirectories of a path for code snippets, R scripts, R Markdown, PDF or text files containing a specific pattern. Files found can be copied to a new folder.

Maintained by David Zumbach. Last updated 5 years ago.

find markdown pdf scripts txt

16.0 match 8 stars 4.28 score 16 scripts 1 dependents

ardata-fr

doconv:Document Conversion to 'PDF' or 'PNG'

It provides the ability to generate images from documents of different types. Three main features are provided: functions for generating document thumbnails, functions for performing visual tests of documents and a function for updating fields and table of contents of a 'Microsoft Word' or 'RTF' document. In order to work, 'LibreOffice' must be installed on the machine and or 'Microsoft Word'. If the latter is available, it can be used to produce PDF documents or images identical to the originals; otherwise, 'LibreOffice' is used and the rendering can be sometimes different from the original documents.

Maintained by David Gohel. Last updated 6 months ago.

11.5 match 16 stars 5.54 score 28 scripts 1 dependents

lightbridge-ks

thaipdf:R Markdown to PDF in Thai Language

Provide R Markdown templates and LaTeX preamble which are necessary for creating PDF from R Markdown documents in Thai language.

Maintained by Kittipos Sirivongrungson. Last updated 3 years ago.

latex-template pdf-document rmarkdown thai thai-language

14.4 match 5 stars 4.40 score 1 scripts

steverozen

ICAMS:In-Depth Characterization and Analysis of Mutational Signatures ('ICAMS')

Analysis and visualization of experimentally elucidated mutational signatures -- the kind of analysis and visualization in Boot et al., "In-depth characterization of the cisplatin mutational signature in human cell lines and in esophageal and liver tumors", Genome Research 2018, <doi:10.1101/gr.230219.117> and "Characterization of colibactin-associated mutational signature in an Asian oral squamous cell carcinoma and in other mucosal tumor types", Genome Research 2020 <doi:10.1101/gr.255620.119>. 'ICAMS' stands for In-depth Characterization and Analysis of Mutational Signatures. 'ICAMS' has functions to read in variant call files (VCFs) and to collate the corresponding catalogs of mutational spectra and to analyze and plot catalogs of mutational spectra and signatures. Handles both "counts-based" and "density-based" (i.e. representation as mutations per megabase) mutational spectra or signatures.

Maintained by Steve Rozen. Last updated 3 years ago.

11.5 match 8 stars 5.41 score 128 scripts

vincentarelbundock

tinytable:Simple and Configurable Tables in 'HTML', 'LaTeX', 'Markdown', 'Word', 'PNG', 'PDF', and 'Typst' Formats

Create highly customized tables with this simple and dependency-free package. Data frames can be converted to 'HTML', 'LaTeX', 'Markdown', 'Word', 'PNG', 'PDF', or 'Typst' tables. The user interface is minimalist and easy to learn. The syntax is concise. 'HTML' tables can be customized using the flexible 'Bootstrap' framework, and 'LaTeX' code with the 'tabularray' package.

Maintained by Vincent Arel-Bundock. Last updated 7 days ago.

4.9 match 264 stars 12.26 score 562 scripts 10 dependents

ropensci

qpdf:Split, Combine and Compress PDF Files

Content-preserving transformations transformations of PDF files such as split, combine, and compress. This package interfaces directly to the 'qpdf' C++ library <https://qpdf.sourceforge.io/> and does not require any command line utilities. Note that 'qpdf' does not read actual content from PDF files: to extract text and data you need the 'pdftools' package.

Maintained by Jeroen Ooms. Last updated 6 days ago.

libjpeg-turbo zlib cpp

5.6 match 57 stars 10.65 score 203 scripts 76 dependents

distancedevelopment

mrds:Mark-Recapture Distance Sampling

Animal abundance estimation via conventional, multiple covariate and mark-recapture distance sampling (CDS/MCDS/MRDS). Detection function fitting is performed via maximum likelihood. Also included are diagnostics and plotting for fitted detection functions. Abundance estimation is via a Horvitz-Thompson-like estimator.

Maintained by Laura Marshall. Last updated 1 days ago.

7.0 match 4 stars 8.06 score 78 scripts 7 dependents

yihui

animation:A Gallery of Animations in Statistics and Utilities to Create Animations

Provides functions for animations in statistics, covering topics in probability theory, mathematical statistics, multivariate statistics, non-parametric statistics, sampling survey, linear models, time series, computational statistics, data mining and machine learning. These functions may be helpful in teaching statistics and data analysis. Also provided in this package are a series of functions to save animations to various formats, e.g. Flash, 'GIF', HTML pages, 'PDF' and videos. 'PDF' animations can be inserted into 'Sweave' / 'knitr' easily.

Maintained by Yihui Xie. Last updated 2 years ago.

animation statistical-computing statistical-graphics statistics

4.5 match 208 stars 12.13 score 2.5k scripts 28 dependents

kenaho1

asbio:A Collection of Statistical Tools for Biologists

Contains functions from: Aho, K. (2014) Foundational and Applied Statistics for Biologists using R. CRC/Taylor and Francis, Boca Raton, FL, ISBN: 978-1-4398-7338-0.

Maintained by Ken Aho. Last updated 2 months ago.

7.5 match 5 stars 7.32 score 310 scripts 3 dependents

pik-piam

remind2:The REMIND R package (2nd generation)

Contains the REMIND-specific routines for data and model output manipulation.

Maintained by Renato Rodrigues. Last updated 6 hours ago.

6.1 match 8.87 score 161 scripts 5 dependents

cran

gss:General Smoothing Splines

A comprehensive package for structural multivariate function estimation using smoothing splines.

Maintained by Chong Gu. Last updated 6 months ago.

fortran openblas

8.3 match 3 stars 6.40 score 137 dependents

expersso

pdftables:Programmatic Conversion of PDF Tables

Allows the user to convert PDF tables to formats more amenable to analysis ('.csv', '.xml', or '.xlsx') by wrapping the PDFTables API. In order to use the package, the user needs to sign up for an API account on the PDFTables website (<https://pdftables.com/pdf-to-excel-api>). The package works by taking a PDF file as input, uploading it to PDFTables, and returning a file with the extracted data.

Maintained by Eric Persson. Last updated 9 years ago.

9.1 match 40 stars 5.81 score 32 scripts

workflowr

workflowr:A Framework for Reproducible and Collaborative Data Science

Provides a workflow for your analysis projects by combining literate programming ('knitr' and 'rmarkdown') and version control ('Git', via 'git2r') to generate a website containing time-stamped, versioned, and documented results.

Maintained by John Blischak. Last updated 4 months ago.

git project-management rmarkdown website workflow

4.4 match 848 stars 11.53 score 566 scripts

quarto-dev

quarto:R Interface to 'Quarto' Markdown Publishing System

Convert R Markdown documents and 'Jupyter' notebooks to a variety of output formats using 'Quarto'.

Maintained by Christophe Dervieux. Last updated 11 days ago.

3.3 match 147 stars 14.98 score 1.3k scripts 36 dependents

alissonrp

fastrep:Time-Saving Package for Creating Reports

Provides templates for reports in 'rmarkdown' and functions to create tables and summaries of data.

Maintained by Alisson Rosa. Last updated 3 years ago.

latex pdf rmarkdown

11.0 match 6 stars 4.48 score 6 scripts

ropensci

RefManageR:Straightforward 'BibTeX' and 'BibLaTeX' Bibliography Management

Provides tools for importing and working with bibliographic references. It greatly enhances the 'bibentry' class by providing a class 'BibEntry' which stores 'BibTeX' and 'BibLaTeX' references, supports 'UTF-8' encoding, and can be easily searched by any field, by date ranges, and by various formats for name lists (author by last names, translator by full names, etc.). Entries can be updated, combined, sorted, printed in a number of styles, and exported. 'BibTeX' and 'BibLaTeX' '.bib' files can be read into 'R' and converted to 'BibEntry' objects. Interfaces to 'NCBI Entrez', 'CrossRef', and 'Zotero' are provided for importing references and references can be created from locally stored 'PDF' files using 'Poppler'. Includes functions for citing and generating a bibliography with hyperlinks for documents prepared with 'RMarkdown' or 'RHTML'.

Maintained by Mathew W. McLean. Last updated 4 months ago.

peer-reviewed

4.1 match 115 stars 12.06 score 2.3k scripts 16 dependents

jamesotto852

ggdensity:Interpretable Bivariate Density Visualization with 'ggplot2'

The 'ggplot2' package provides simple functions for visualizing contours of 2-d kernel density estimates. 'ggdensity' implements several additional density estimators as well as more interpretable visualizations based on highest density regions instead of the traditional height of the estimated density surface.

Maintained by James Otto. Last updated 1 years ago.

6.0 match 231 stars 8.11 score 185 scripts 2 dependents

henrikbengtsson

R.utils:Various Programming Utilities

Utility functions useful when programming and developing R packages.

Maintained by Henrik Bengtsson. Last updated 1 years ago.

3.4 match 63 stars 13.74 score 5.7k scripts 814 dependents

ocean-tracking-network

glatos:A package for the Great Lakes Acoustic Telemetry Observation System

Functions useful to members of the Great Lakes Acoustic Telemetry Observation System https://glatos.glos.us; many more broadly relevant to simulating, processing, analysing, and visualizing acoustic telemetry data.

Maintained by Christopher Holbrook. Last updated 6 months ago.

7.2 match 10 stars 6.38 score 112 scripts

cdcgov

surveytable:Formatted Survey Estimates

Short and understandable commands that generate tabulated, formatted, and rounded survey estimates. Mostly a wrapper for the 'survey' package (Lumley (2004) <doi:10.18637/jss.v009.i08> <https://CRAN.R-project.org/package=survey>) that identifies low-precision estimates using the National Center for Health Statistics (NCHS) presentation standards (Parker et al. (2017) <https://www.cdc.gov/nchs/data/series/sr_02/sr02_175.pdf>, Parker et al. (2023) <doi:10.15620/cdc:124368>).

Maintained by Alex Strashny. Last updated 16 days ago.

estimates formatted-output pretty-print survey tables

6.8 match 6 stars 6.71 score 19 scripts

ropensci

rtika:R Interface to 'Apache Tika'

Extract text or metadata from over a thousand file types, using Apache Tika <https://tika.apache.org/>. Get either plain text or structured XHTML content.

Maintained by Sasha Goodman. Last updated 2 years ago.

extract-metadata extract-text java parse pdf-files peer-reviewed tesseract tika

7.5 match 55 stars 6.00 score 12 scripts

bioc

BiocStyle:Standard styles for vignettes and other Bioconductor documents

Provides standard formatting styles for Bioconductor PDF and HTML documents. Package vignettes illustrate use and functionality.

Maintained by Bioconductor Package Maintainer. Last updated 5 months ago.

software bioconductor-package core-package

3.9 match 12 stars 11.31 score 1.2k scripts 47 dependents

statnmap

pdfreport:A template for pdf report written in Rmarkdown

Create a tex file that defines caracteristics of your PDF report template.

Maintained by Sebastien Rochette. Last updated 4 years ago.

10.7 match 27 stars 4.13 score 4 scripts

hegghammer

daiR:Interface with Google Cloud Document AI API

R interface for the Google Cloud Services 'Document AI API' <https://cloud.google.com/document-ai/> with additional tools for output file parsing and text reconstruction. 'Document AI' is a powerful server-based OCR service that extracts text and tables from images and PDF files with high accuracy. 'daiR' gives R users programmatic access to this service and additional tools to handle and visualize the output. See the package website <https://dair.info/> for more information and examples.

Maintained by Thomas Hegghammer. Last updated 5 months ago.

google-cloud ocr

6.5 match 42 stars 6.77 score 40 scripts

dbosak01

reporter:Creates Statistical Reports

Contains functions to create regulatory-style statistical reports. Originally designed to create tables, listings, and figures for the pharmaceutical, biotechnology, and medical device industries, these reports are generalized enough that they could be used in any industry. Generates text, rich-text, PDF, HTML, and Microsoft Word file formats. The package specializes in printing wide and long tables with automatic page wrapping and splitting. Reports can be produced with a minimum of function calls, and without relying on other table packages. The package supports titles, footnotes, page header, page footers, spanning headers, page by variables, and automatic page numbering.

Maintained by David Bosak. Last updated 1 years ago.

report reporting reports rptr

4.6 match 16 stars 9.35 score 173 scripts 4 dependents

iheid-library

iheiddown:For Writing Geneva Graduate Institute Documents

A set of tools for writing documents according to Geneva Graduate Institute conventions and regulations. The most common use is for writing and compiling theses or thesis chapters, as drafts or for examination with correct preamble formatting. However, the package also offers users to create HTML presentation slides with 'xaringan', complete problem sets, format posters, and, for course instructors, prepare a syllabus. The package includes additional functions for institutional color palettes, an institutional 'ggplot' theme, a function for counting manuscript words, and a bibliographical analysis toolkit.

Maintained by James Hollway. Last updated 2 years ago.

rmarkdown thesis university

7.0 match 11 stars 6.14 score 5 scripts

cran

CopulaGAMM:Copula-Based Mixed Regression Models

Estimation of 2-level factor copula-based regression models for clustered data where the response variable can be either discrete or continuous.

Maintained by Bruno N Remillard. Last updated 1 years ago.

41.9 match 1.00 score

mjlajeunesse

metagear:Comprehensive Research Synthesis Tools for Systematic Reviews and Meta-Analysis

Functionalities for facilitating systematic reviews, data extractions, and meta-analyses. It includes a GUI (graphical user interface) to help screen the abstracts and titles of bibliographic data; tools to assign screening effort across multiple collaborators/reviewers and to assess inter- reviewer reliability; tools to help automate the download and retrieval of journal PDF articles from online databases; figure and image extractions from PDFs; web scraping of citations; automated and manual data extraction from scatter-plot and bar-plot images; PRISMA (Preferred Reporting Items for Systematic Reviews and Meta-Analyses) flow diagrams; simple imputation tools to fill gaps in incomplete or missing study parameters; generation of random effects sizes for Hedges' d, log response ratio, odds ratio, and correlation coefficients for Monte Carlo experiments; covariance equations for modelling dependencies among multiple effect sizes (e.g., effect sizes with a common control); and finally summaries that replicate analyses and outputs from widely used but no longer updated meta-analysis software (i.e., metawin). Funding for this package was supported by National Science Foundation (NSF) grants DBI-1262545 and DEB-1451031. CITE: Lajeunesse, M.J. (2016) Facilitating systematic reviews, data extraction and meta-analysis with the metagear package for R. Methods in Ecology and Evolution 7, 323-330 <doi:10.1111/2041-210X.12472>.

Maintained by Marc J. Lajeunesse. Last updated 4 years ago.

5.9 match 14 stars 6.71 score 91 scripts

wadpac

GGIR:Raw Accelerometer Data Analysis

A tool to process and analyse data collected with wearable raw acceleration sensors as described in Migueles and colleagues (JMPB 2019), and van Hees and colleagues (JApplPhysiol 2014; PLoSONE 2015). The package has been developed and tested for binary data from 'GENEActiv' <https://activinsights.com/>, binary (.gt3x) and .csv-export data from 'Actigraph' <https://theactigraph.com> devices, and binary (.cwa) and .csv-export data from 'Axivity' <https://axivity.com>. These devices are currently widely used in research on human daily physical activity. Further, the package can handle accelerometer data file from any other sensor brand providing that the data is stored in csv format. Also the package allows for external function embedding.

Maintained by Vincent T van Hees. Last updated 14 days ago.

accelerometer activity-recognition circadian-rhythm movement-sensor sleep

3.0 match 109 stars 13.20 score 342 scripts 3 dependents

s-u

Cairo:R Graphics Device using Cairo Graphics Library for Creating High-Quality Bitmap (PNG, JPEG, TIFF), Vector (PDF, SVG, PostScript) and Display (X11 and Win32) Output

R graphics device using cairographics library that can be used to create high-quality vector (PDF, PostScript and SVG) and bitmap output (PNG,JPEG,TIFF), and high-quality rendering in displays (X11 and Win32). Since it uses the same back-end for all output, copying across formats is WYSIWYG. Files are created without the dependence on X11 or other external programs. This device supports alpha channel (semi-transparent drawing) and resulting images can contain transparent and semi-transparent regions. It is ideal for use in server environments (file output) and as a replacement for other devices that don't have Cairo's capabilities such as alpha support or anti-aliasing. Backends are modular such that any subset of backends is supported.

Maintained by Simon Urbanek. Last updated 8 months ago.

freetype cairo libx11 libjpeg-turbo harfbuzz icu tiff

3.1 match 14 stars 12.58 score 3.9k scripts 73 dependents

ropensci

rsvg:Render SVG Images into PDF, PNG, (Encapsulated) PostScript, or Bitmap Arrays

Renders vector-based svg images into high-quality custom-size bitmap arrays using 'librsvg2'. The resulting bitmap can be written to e.g. png, jpeg or webp format. In addition, the package can convert images directly to various formats such as pdf or postscript.

Maintained by Jeroen Ooms. Last updated 5 days ago.

librsvg glib cairo

3.3 match 96 stars 11.92 score 868 scripts 46 dependents

jknowles

eeptools:Convenience Functions for Education Data

Collection of convenience functions to make working with administrative records easier and more consistent. Includes functions to clean strings, and identify cut points. Also includes three example data sets of administrative education records for learning how to process records with errors.

Maintained by Jared E. Knowles. Last updated 2 years ago.

5.0 match 32 stars 7.72 score 416 scripts

yanlesin

SEC13Flist:Functions to Work with Official List of SEC Section 13(f) Securities and Security Identifiers

Extract official list of SEC Section 13(f) securities in data processing friendly format. Extracted data could be used for analysis or export in required format using existing export functionality (in CSV, database connections, or other required format). Official list of SEC Section 13(f) securities published quarterly on SEC website <https://www.sec.gov/divisions/investment/13flists.htm> in PDF format (500+ pages) and used in mandatory quarterly reporting for financial firms. Also provides function to validate Committee on Uniform Securities Identification Procedures numbers for any security including numbers provided in SEC official list.

Maintained by Yan Lyesin. Last updated 2 months ago.

13f cusip dataframe isin parse pdf sec sedol cpp

11.5 match 7 stars 3.35 score 16 scripts

bioc

qusage:qusage: Quantitative Set Analysis for Gene Expression

This package is an implementation the Quantitative Set Analysis for Gene Expression (QuSAGE) method described in (Yaari G. et al, Nucl Acids Res, 2013). This is a novel Gene Set Enrichment-type test, which is designed to provide a faster, more accurate, and easier to understand test for gene expression studies. qusage accounts for inter-gene correlations using the Variance Inflation Factor technique proposed by Wu et al. (Nucleic Acids Res, 2012). In addition, rather than simply evaluating the deviation from a null hypothesis with a single number (a P value), qusage quantifies gene set activity with a complete probability density function (PDF). From this PDF, P values and confidence intervals can be easily extracted. Preserving the PDF also allows for post-hoc analysis (e.g., pair-wise comparisons of gene set activity) while maintaining statistical traceability. Finally, while qusage is compatible with individual gene statistics from existing methods (e.g., LIMMA), a Welch-based method is implemented that is shown to improve specificity. The QuSAGE package also includes a mixed effects model implementation, as described in (Turner JA et al, BMC Bioinformatics, 2015), and a meta-analysis framework as described in (Meng H, et al. PLoS Comput Biol. 2019). For questions, contact Chris Bolen (cbolen1@gmail.com) or Steven Kleinstein (steven.kleinstein@yale.edu)

Maintained by Christopher Bolen. Last updated 5 months ago.

genesetenrichment microarray rnaseq software immunooncology

6.7 match 5.65 score 185 scripts 1 dependents

atlas-aai

ratlas:ATLAS Formatting Functions and Templates

Provides templates, formatting tools, and 'ggplot2' themes tailored for the Accessible Teaching, Learning, and Assessment Systems (ATLAS) organization. These templates facilitate the creation of topic guides and technical reports, while the formatting functions enable users to customize numbers and tables to meet specific requirements. Additionally, the themes ensure a uniform visual style across graphics.

Maintained by W. Jake Thompson. Last updated 5 months ago.

bookdown ggplot2 ggplot2-themes rmarkdown rmarkdown-template

5.2 match 29 stars 7.28 score 20 scripts

dsy109

mixtools:Tools for Analyzing Finite Mixture Models

Analyzes finite mixture models for various parametric and semiparametric settings. This includes mixtures of parametric distributions (normal, multivariate normal, multinomial, gamma), various Reliability Mixture Models (RMMs), mixtures-of-regressions settings (linear regression, logistic regression, Poisson regression, linear regression with changepoints, predictor-dependent mixing proportions, random effects regressions, hierarchical mixtures-of-experts), and tools for selecting the number of components (bootstrapping the likelihood ratio test statistic, mixturegrams, and model selection criteria). Bayesian estimation of mixtures-of-linear-regressions models is available as well as a novel data depth method for obtaining credible bands. This package is based upon work supported by the National Science Foundation under Grant No. SES-0518772 and the Chan Zuckerberg Initiative: Essential Open Source Software for Science (Grant No. 2020-255193).

Maintained by Derek Young. Last updated 9 months ago.

mixture-models mixture-of-experts semiparametric-regression

3.3 match 20 stars 11.34 score 1.4k scripts 56 dependents

bioc

CellNOptR:Training of boolean logic models of signalling networks using prior knowledge networks and perturbation data

This package does optimisation of boolean logic networks of signalling pathways based on a previous knowledge network and a set of data upon perturbation of the nodes in the network.

Maintained by Attila Gabor. Last updated 4 days ago.

cellbasedassays cellbiology proteomics pathways network timecourse immunooncology

5.3 match 6.95 score 98 scripts 6 dependents

cran

RWsearch:Lazy Search in R Packages, Task Views, CRAN, the Web. All-in-One Download

Search by keywords in R packages, task views, CRAN, the web and display the results in the console or in txt, html or pdf files. Download the package documentation (html index, README, NEWS, pdf manual, vignettes, source code, binaries) with a single instruction. Visualize the package dependencies and CRAN checks. Compare the package versions, unload and install the packages and their dependencies in a safe order. Explore CRAN archives. Use the above functions for task view maintenance. Access web search engines from the console thanks to 80+ bookmarks. All functions accept standard and non-standard evaluation.

Maintained by Patrice Kiener. Last updated 15 days ago.

10.0 match 3.70 score

r-lib

devtools:Tools to Make Developing R Packages Easier

Collection of package development tools.

Maintained by Jennifer Bryan. Last updated 6 months ago.

package-creation

1.9 match 2.4k stars 19.55 score 51k scripts 150 dependents

nenuial

geovizr:Support for Knitr (Quarto/Rmd)

Provide support functions for Quarto and Rmd documents.

Maintained by Pascal Burkhard. Last updated 1 months ago.

14.1 match 2.60 score 3 scripts

spedygiorgio

markovchain:Easy Handling Discrete Time Markov Chains

Functions and S4 methods to create and manage discrete time Markov chains more easily. In addition functions to perform statistical (fitting and drawing random variates) and probabilistic (analysis of their structural proprieties) analysis are provided. See Spedicato (2017) <doi:10.32614/RJ-2017-036>. Some functions for continuous times Markov chains depend on the suggested ctmcd package.

Maintained by Giorgio Alfredo Spedicato. Last updated 5 months ago.

ctmc dtmc markov-chain markov-model r-programming rcpp openblas cpp

2.8 match 104 stars 12.78 score 712 scripts 4 dependents

cardiomoon

rrtable:Reproducible Research with a Table of R Codes

Makes documents containing plots and tables from a table of R codes. Can make "HTML", "pdf('LaTex')", "docx('MS Word')" and "pptx('MS Powerpoint')" documents with or without R code. In the package, modularized 'shiny' app codes are provided. These modules are intended for reuse across applications.

Maintained by Keon-Woong Moon. Last updated 2 years ago.

5.6 match 3 stars 6.45 score 76 scripts 2 dependents

refunders

refund.shiny:Interactive Plotting for Functional Data Analyses

Produces Shiny applications for different types of popular functional data analyses. The functional data analyses are implemented in the refund package, then refund.shiny reads in the refund object and implements an object-specific set of plots based on the object class using S3.

Maintained by Julia Wrobel. Last updated 1 years ago.

7.0 match 4 stars 4.91 score 45 scripts

haozhu233

kableExtra:Construct Complex Table with 'kable' and Pipe Syntax

Build complex HTML or 'LaTeX' tables using 'kable()' from 'knitr' and the piping syntax from 'magrittr'. Function 'kable()' is a light weight table generator coming from 'knitr'. This package simplifies the way to manipulate the HTML or 'LaTeX' codes generated by 'kable()' and allows users to construct complex tables and customize styles using a readable syntax.

Maintained by Hao Zhu. Last updated 22 days ago.

html kable kableextra knitr latex rmarkdown

1.8 match 702 stars 19.35 score 55k scripts 163 dependents

d-acharya

Dowd:Functions Ported from 'MMR2' Toolbox Offered in Kevin Dowd's Book Measuring Market Risk

'Kevin Dowd's' book Measuring Market Risk is a widely read book in the area of risk measurement by students and practitioners alike. As he claims, 'MATLAB' indeed might have been the most suitable language when he originally wrote the functions, but, with growing popularity of R it is not entirely valid. As 'Dowd's' code was not intended to be error free and were mainly for reference, some functions in this package have inherited those errors. An attempt will be made in future releases to identify and correct them. 'Dowd's' original code can be downloaded from www.kevindowd.org/measuring-market-risk/. It should be noted that 'Dowd' offers both 'MMR2' and 'MMR1' toolboxes. Only 'MMR2' was ported to R. 'MMR2' is more recent version of 'MMR1' toolbox and they both have mostly similar function. The toolbox mainly contains different parametric and non parametric methods for measurement of market risk as well as backtesting risk measurement methods.

Maintained by Dinesh Acharya. Last updated 9 years ago.

10.4 match 3.19 score 154 scripts

ewenharrison

finalfit:Quickly Create Elegant Regression Results Tables and Plots when Modelling

Generate regression results tables and plots in final format for publication. Explore models and export directly to PDF and 'Word' using 'RMarkdown'.

Maintained by Ewen Harrison. Last updated 7 days ago.

2.9 match 270 stars 11.43 score 1.0k scripts

bioc

biocViews:Categorized views of R package repositories

Infrastructure to support 'views' used to classify Bioconductor packages. 'biocViews' are directed acyclic graphs of terms from a controlled vocabulary. There are three major classifications, corresponding to 'software', 'annotation', and 'experiment data' packages.

Maintained by Bioconductor Package Maintainer. Last updated 5 months ago.

infrastructure bioconductor-package core-package

3.4 match 4 stars 9.71 score 30 scripts 14 dependents

ajrgodfrey

BrailleR:Improved Access for Blind Users

Blind users do not have access to the graphical output from R without printing the content of graphics windows to an embosser of some kind. This is not as immediate as is required for efficient access to statistical output. The functions here are created so that blind people can make even better use of R. This includes the text descriptions of graphs, convenience functions to replace the functionality offered in many GUI front ends, and experimental functionality for optimising graphical content to prepare it for embossing as tactile images.

Maintained by A. Jonathan R. Godfrey. Last updated 12 months ago.

3.7 match 123 stars 8.90 score 143 scripts

michelenuijten

statcheck:Extract Statistics from Articles and Recompute P-Values

A "spellchecker" for statistics. It checks whether your p-values match their accompanying test statistic and degrees of freedom. statcheck searches for null-hypothesis significance test (NHST) in APA style (e.g., t(28) = 2.2, p < .05). It recalculates the p-value using the reported test statistic and degrees of freedom. If the reported and computed p-values don't match, statcheck will flag the result as an error. If the reported p-value is statistically significant and the recomputed one is not, or vice versa, the result will be flagged as a decision error. You can use statcheck directly on a string of text, but you can also scan a PDF or HTML file, or even a folder of PDF and/or HTML files. Statcheck needs an external program to convert PDF to text: Xpdf. Instructions on where and how to download this program, how to install statcheck, and more details on what statcheck can and cannot do can be found in the online manual: <https://rpubs.com/michelenuijten/statcheckmanual>. You can find a point-and-click web interface to scan PDF or HTML or DOCX articles on <http://statcheck.io>.

Maintained by Michele B. Nuijten. Last updated 8 months ago.

nhst p-values reproducibility statistics

4.3 match 178 stars 7.55 score 40 scripts

paulgovan

AutoDeskR:An Interface to the 'AutoDesk' 'API' Platform

An interface to the 'AutoDesk' 'API' Platform including the Authentication 'API' for obtaining authentication to the 'AutoDesk' Forge Platform, Data Management 'API' for managing data across the platform's cloud services, Design Automation 'API' for performing automated tasks on design files in the cloud, Model Derivative 'API' for translating design files into different formats, sending them to the viewer app, and extracting design data, and Viewer for rendering 2D and 3D models.

Maintained by Paul Govan. Last updated 7 months ago.

3d-models autodesk viewer

5.2 match 7 stars 6.13 score 16 scripts

mayoverse

arsenal:An Arsenal of 'R' Functions for Large-Scale Statistical Summaries

An Arsenal of 'R' functions for large-scale statistical summaries, which are streamlined to work within the latest reporting tools in 'R' and 'RStudio' and which use formulas and versatile summary statistics for summary tables and models. The primary functions include tableby(), a Table-1-like summary of multiple variable types 'by' the levels of one or more categorical variables; paired(), a Table-1-like summary of multiple variable types paired across two time points; modelsum(), which performs simple model fits on one or more endpoints for many variables (univariate or adjusted for covariates); freqlist(), a powerful frequency table across many categorical variables; comparedf(), a function for comparing data.frames; and write2(), a function to output tables to a document.

Maintained by Ethan Heinzen. Last updated 8 months ago.

baseline-characteristics descriptive-statistics modeling paired-comparisons reporting statistics tableone

2.4 match 225 stars 13.40 score 1.2k scripts 15 dependents

rstudio

bookdown:Authoring Books and Technical Documents with R Markdown

Output formats and utilities for authoring books and technical documents with R Markdown.

Maintained by Yihui Xie. Last updated 14 days ago.

book bookdown epub gitbook html latex rmarkdown

1.8 match 3.9k stars 17.51 score 1.7k scripts 136 dependents

r-lib

ymlthis:Write 'YAML' for 'R Markdown', 'bookdown', 'blogdown', and More

Write 'YAML' front matter for R Markdown and related documents. Work with 'YAML' objects more naturally and write the resulting 'YAML' to your clipboard or to 'YAML' files related to your project.

Maintained by Malcolm Barrett. Last updated 3 years ago.

3.1 match 165 stars 9.92 score 196 scripts 14 dependents

bioc

RCy3:Functions to Access and Control Cytoscape

Vizualize, analyze and explore networks using Cytoscape via R. Anything you can do using the graphical user interface of Cytoscape, you can now do with a single RCy3 function.

Maintained by Alex Pico. Last updated 2 days ago.

visualization graphandnetwork thirdpartyclient network

2.3 match 52 stars 13.47 score 628 scripts 17 dependents

andrisignorell

DescTools:Tools for Descriptive Statistics

A collection of miscellaneous basic statistic functions and convenience wrappers for efficiently describing data. The author's intention was to create a toolbox, which facilitates the (notoriously time consuming) first descriptive tasks in data analysis, consisting of calculating descriptive statistics, drawing graphical summaries and reporting the results. The package contains furthermore functions to produce documents using MS Word (or PowerPoint) and functions to import data from Excel. Many of the included functions can be found scattered in other packages and other sources written partly by Titans of R. The reason for collecting them here, was primarily to have them consolidated in ONE instead of dozens of packages (which themselves might depend on other packages which are not needed at all), and to provide a common and consistent interface as far as function and arguments naming, NA handling, recycling rules etc. are concerned. Google style guides were used as naming rules (in absence of convincing alternatives). The 'BigCamelCase' style was consequently applied to functions borrowed from contributed R packages as well.

Maintained by Andri Signorell. Last updated 12 days ago.

fortran cpp

1.8 match 87 stars 16.70 score 7.7k scripts 99 dependents

richardhooijmaijers

R3port:Report Functions to Create HTML and PDF Files

Create and combine HTML and PDF reports from within R. Possibility to design tables and listings for reporting and also include R plots.

Maintained by Richard Hooijmaijers. Last updated 2 years ago.

5.2 match 10 stars 5.71 score 34 scripts 1 dependents

bioc

Biobase:Biobase: Base functions for Bioconductor

Functions that are needed by many other packages or which replace R functions.

Maintained by Bioconductor Package Maintainer. Last updated 5 months ago.

infrastructure bioconductor-package core-package

1.8 match 9 stars 16.45 score 6.6k scripts 1.8k dependents

rapporter

rapport:A Report Templating System

Facilitating the creation of reproducible statistical report templates. Once created, rapport templates can be exported to various external formats (HTML, LaTeX, PDF, ODT etc.) with pandoc as the converter backend.

Maintained by Gergely Daróczi. Last updated 4 years ago.

5.0 match 49 stars 5.81 score 66 scripts

mikejareds

hermiter:Efficient Sequential and Batch Estimation of Univariate and Bivariate Probability Density Functions and Cumulative Distribution Functions along with Quantiles (Univariate) and Nonparametric Correlation (Bivariate)

Facilitates estimation of full univariate and bivariate probability density functions and cumulative distribution functions along with full quantile functions (univariate) and nonparametric correlation (bivariate) using Hermite series based estimators. These estimators are particularly useful in the sequential setting (both stationary and non-stationary) and one-pass batch estimation setting for large data sets. Based on: Stephanou, Michael, Varughese, Melvin and Macdonald, Iain. "Sequential quantiles via Hermite series density estimation." Electronic Journal of Statistics 11.1 (2017): 570-607 <doi:10.1214/17-EJS1245>, Stephanou, Michael and Varughese, Melvin. "On the properties of Hermite series based distribution function estimators." Metrika (2020) <doi:10.1007/s00184-020-00785-z> and Stephanou, Michael and Varughese, Melvin. "Sequential estimation of Spearman rank correlation using Hermite series estimators." Journal of Multivariate Analysis (2021) <doi:10.1016/j.jmva.2021.104783>.

Maintained by Michael Stephanou. Last updated 7 months ago.

cumulative-distribution-function kendall-correlation-coefficient online-algorithms probability-density-function quantile spearman-correlation-coefficient statistics streaming-algorithms streaming-data cpp

5.7 match 15 stars 5.11 score 17 scripts

terminological

html2pdfr:R Wrapper For Openhtmltopdf Java Library

HTML and CSS do a good job at automatically laying out and styling content particularly in tables, however it is not natively designed for pagination. This library converts HTML content into PDF and PNG formats for embedding into LaTeX documents, within the constraints of page sizes. It allows use of HTML table layout from HTML first libraries such as 'gt' and 'huxtable' within latex documents. It allows HTML content to grow in width up to the page dimensions, but preventing it from overflowing, and without forcing table layout to be wider than it would normally be. This heurisitic calculation of the output size up to fit within set limits is one of the differentiators between this and other HTML to PDF converters. Although the focus is on tables, any basic HTML content can be rendered, including simple SVG and MathML, up to the support of the underlying HTML rendering engine (https://github.com/danfickle/openhtmltopdf).

Maintained by Rob Challen. Last updated 11 months ago.

openjdk

10.5 match 1 stars 2.70 score 2 scripts

tkonopka

Rcssplot:Styling of Graphics using Cascading Style Sheets

Provides a means to style plots through cascading style sheets. This separates the aesthetics from the data crunching in plots and charts.

Maintained by Tomasz Konopka. Last updated 5 months ago.

css data-science visualization

5.2 match 10 stars 5.35 score 15 scripts

florianhartig

DHARMa:Residual Diagnostics for Hierarchical (Multi-Level / Mixed) Regression Models

The 'DHARMa' package uses a simulation-based approach to create readily interpretable scaled (quantile) residuals for fitted (generalized) linear mixed models. Currently supported are linear and generalized linear (mixed) models from 'lme4' (classes 'lmerMod', 'glmerMod'), 'glmmTMB', 'GLMMadaptive', and 'spaMM'; phylogenetic linear models from 'phylolm' (classes 'phylolm' and 'phyloglm'); generalized additive models ('gam' from 'mgcv'); 'glm' (including 'negbin' from 'MASS', but excluding quasi-distributions) and 'lm' model classes. Moreover, externally created simulations, e.g. posterior predictive simulations from Bayesian software such as 'JAGS', 'STAN', or 'BUGS' can be processed as well. The resulting residuals are standardized to values between 0 and 1 and can be interpreted as intuitively as residuals from a linear regression. The package also provides a number of plot and test functions for typical model misspecification problems, such as over/underdispersion, zero-inflation, and residual spatial, phylogenetic and temporal autocorrelation.

Maintained by Florian Hartig. Last updated 24 days ago.

glmm regression regression-diagnostics residual

1.9 match 226 stars 14.74 score 2.8k scripts 10 dependents

benkeser

drord:Doubly-Robust Estimators for Ordinal Outcomes

Efficient covariate-adjusted estimators of quantities that are useful for establishing the effects of treatments on ordinal outcomes (Benkeser, Diaz, Luedtke 2020 <doi:10.1111/biom.13377>)

Maintained by David Benkeser. Last updated 4 years ago.

causal-inference covid-19 double-robust mann-whitney ordinal-regression

6.3 match 4 stars 4.38 score 12 scripts

epinowcast

primarycensored:Primary Event Censored Distributions

Provides functions for working with primary event censored distributions and 'Stan' implementations for use in Bayesian modeling. Primary event censored distributions are useful for modeling delayed reporting scenarios in epidemiology and other fields (Charniga et al. (2024) <doi:10.48550/arXiv.2405.08841>). It also provides support for arbitrary delay distributions, a range of common primary distributions, and allows for truncation and secondary event censoring to be accounted for (Park et al. (2024) <doi:10.1101/2024.01.12.24301247>). A subset of common distributions also have analytical solutions implemented, allowing for faster computation. In addition, it provides multiple methods for fitting primary event censored distributions to data via optional dependencies.

Maintained by Sam Abbott. Last updated 2 months ago.

censoring distributions mc-stan truncation

3.4 match 8 stars 7.69 score 16 scripts 1 dependents

jameshwade

gpttools:Extensions and Tools for gptstudio

gpttools is an R package that provides extensions to gptstudio to provide devtools-like functionality using the latest natural language processing (NLP) models. It is designed to make package development easier by providing a range of tools and functions that can be used to improve the quality of your package's documentation, testing, and maybe even functionality.

Maintained by James Wade. Last updated 7 months ago.

chatgpt nlp openai package-development rstudio-addin

3.9 match 296 stars 6.76 score 14 scripts

r-forge

tm:Text Mining Package

A framework for text mining applications within R.

Maintained by Kurt Hornik. Last updated 1 months ago.

cpp

2.0 match 13.00 score 14k scripts 100 dependents

ctn-0094

DOPE:Drug Ontology Parsing Engine

Provides information on drug names (brand, generic and street) for drugs tracked by the DEA. There are functions that will search synonyms and return the drug names and types. The vignettes have extensive information on the work done to create the data for the package.

Maintained by Raymond Balise. Last updated 4 years ago.

3.3 match 21 stars 7.83 score 31 scripts

gamlss-dev

gamlss:Generalized Additive Models for Location Scale and Shape

Functions for fitting the Generalized Additive Models for Location Scale and Shape introduced by Rigby and Stasinopoulos (2005), <doi:10.1111/j.1467-9876.2005.00510.x>. The models use a distributional regression approach where all the parameters of the conditional distribution of the response variable are modelled using explanatory variables.

Maintained by Mikis Stasinopoulos. Last updated 4 months ago.

2.3 match 18 stars 11.19 score 2.0k scripts 48 dependents

rmheiberger

HH:Statistical Analysis and Data Display: Heiberger and Holland

Support software for Statistical Analysis and Data Display (Second Edition, Springer, ISBN 978-1-4939-2121-8, 2015) and (First Edition, Springer, ISBN 0-387-40270-5, 2004) by Richard M. Heiberger and Burt Holland. This contemporary presentation of statistical methods features extensive use of graphical displays for exploring data and for displaying the analysis. The second edition includes redesigned graphics and additional chapters. The authors emphasize how to construct and interpret graphs, discuss principles of graphical design, and show how accompanying traditional tabular results are used to confirm the visual impressions derived directly from the graphs. Many of the graphical formats are novel and appear here for the first time in print. All chapters have exercises. All functions introduced in the book are in the package. R code for all examples, both graphs and tables, in the book is included in the scripts directory of the package.

Maintained by Richard M. Heiberger. Last updated 2 months ago.

3.9 match 3 stars 6.42 score 752 scripts 5 dependents

kkholst

lava:Latent Variable Models

A general implementation of Structural Equation Models with latent variables (MLE, 2SLS, and composite likelihood estimators) with both continuous, censored, and ordinal outcomes (Holst and Budtz-Joergensen (2013) <doi:10.1007/s00180-012-0344-y>). Mixture latent variable models and non-linear latent variable models (Holst and Budtz-Joergensen (2020) <doi:10.1093/biostatistics/kxy082>). The package also provides methods for graph exploration (d-separation, back-door criterion), simulation of general non-linear latent variable models, and estimation of influence functions for a broad range of statistical models.

Maintained by Klaus K. Holst. Last updated 3 months ago.

latent-variable-models simulation statistics structural-equation-models

1.9 match 33 stars 12.87 score 610 scripts 478 dependents

csgillespie

poweRlaw:Analysis of Heavy Tailed Distributions

An implementation of maximum likelihood estimators for a variety of heavy tailed distributions, including both the discrete and continuous power law distributions. Additionally, a goodness-of-fit based approach is used to estimate the lower cut-off for the scaling region.

Maintained by Colin Gillespie. Last updated 2 months ago.

clauset powerlaw

1.9 match 112 stars 12.79 score 332 scripts 32 dependents

charvey23

AvInertia:Calculate the Inertial Properties of a Flying Bird

Tools to compute the center of gravity and moment of inertia tensor of any flying bird. The tools function by modeling a bird as a composite structure of simple geometric objects. This requires detailed morphological measurements of bird specimens although those obtained for the associated paper have been included in the package for use. Refer to the vignettes and supplementary material for detailed information on the package function.

Maintained by Christina Harvey. Last updated 3 years ago.

4.8 match 6 stars 5.00 score 33 scripts

rstudio

tufte:Tufte's Styles for R Markdown Documents

Provides R Markdown output formats to use Tufte styles for PDF and HTML output.

Maintained by Christophe Dervieux. Last updated 1 months ago.

r-markdown tufte tufte-style

2.3 match 409 stars 10.07 score 1.6k scripts 3 dependents

eddelbuettel

tint:'tint' is not 'Tufte'

A 'tufte'-alike style for 'rmarkdown'. A modern take on the 'Tufte' design for pdf and html vignettes, building on the 'tufte' package with additional contributions from the 'knitr' and 'ggtufte' package, and also acknowledging the key influence of 'envisioned css'.

Maintained by Dirk Eddelbuettel. Last updated 19 hours ago.

markdown vignette

2.4 match 263 stars 9.80 score 318 scripts 1 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 1 days ago.

graphics opengl rgl webgl libglu libglvnd libpng libx11 freetype cpp

1.3 match 91 stars 17.40 score 7.3k scripts 303 dependents

insightsengineering

formatters:ASCII Formatting for Values and Tables

We provide a framework for rendering complex tables to ASCII, and a set of formatters for transforming values or sets of values into ASCII-ready display strings.

Maintained by Joe Zhu. Last updated 3 months ago.

format matrix table

2.3 match 17 stars 10.19 score 22 scripts 20 dependents

zeileis

exams:Automatic Generation of Exams in R

Automatic generation of exams based on exercises in Markdown or LaTeX format, possibly including R code for dynamic generation of exercise elements. Exercise types include single-choice and multiple-choice questions, arithmetic problems, string questions, and combinations thereof (cloze). Output formats include standalone files (PDF, HTML, Docx, ODT, ...), Moodle XML, QTI 1.2, QTI 2.1, Blackboard, Canvas, OpenOlat, ILIAS, TestVision, Particify, ARSnova, Kahoot!, Grasple, and TCExam. In addition to fully customizable PDF exams, a standardized PDF format (NOPS) is provided that can be printed, scanned, and automatically evaluated.

Maintained by Achim Zeileis. Last updated 5 days ago.

2.8 match 1 stars 8.22 score 872 scripts 5 dependents

cdriveraus

ctsem:Continuous Time Structural Equation Modelling

Hierarchical continuous (and discrete) time state space modelling, for linear and nonlinear systems measured by continuous variables, with limited support for binary data. The subject specific dynamic system is modelled as a stochastic differential equation (SDE) or difference equation, measurement models are typically multivariate normal factor models. Linear mixed effects SDE's estimated via maximum likelihood and optimization are the default. Nonlinearities, (state dependent parameters) and random effects on all parameters are possible, using either max likelihood / max a posteriori optimization (with optional importance sampling) or Stan's Hamiltonian Monte Carlo sampling. See <https://github.com/cdriveraus/ctsem/raw/master/vignettes/hierarchicalmanual.pdf> for details. Priors may be used. For the conceptual overview of the hierarchical Bayesian linear SDE approach, see <https://www.researchgate.net/publication/324093594_Hierarchical_Bayesian_Continuous_Time_Dynamic_Modeling>. Exogenous inputs may also be included, for an overview of such possibilities see <https://www.researchgate.net/publication/328221807_Understanding_the_Time_Course_of_Interventions_with_Continuous_Time_Dynamic_Models> . Stan based functions are not available on 32 bit Windows systems at present. <https://cdriver.netlify.app/> contains some tutorial blog posts.

Maintained by Charles Driver. Last updated 23 days ago.

stochastic-differential-equations time-series cpp

2.4 match 42 stars 9.58 score 366 scripts 1 dependents

openintrostat

openintro:Datasets and Supplemental Functions from 'OpenIntro' Textbooks and Labs

Supplemental functions and data for 'OpenIntro' resources, which includes open-source textbooks and resources for introductory statistics (<https://www.openintro.org/>). The package contains datasets used in our open-source textbooks along with custom plotting functions for reproducing book figures. Note that many functions and examples include color transparency; some plotting elements may not show up properly (or at all) when run in some versions of Windows operating system.

Maintained by Mine Çetinkaya-Rundel. Last updated 3 months ago.

data openintro

2.0 match 240 stars 11.39 score 6.0k scripts

bergsmat

yamlet:Versatile Curation of Table Metadata

A YAML-based mechanism for working with table metadata. Supports compact syntax for creating, modifying, viewing, exporting, importing, displaying, and plotting metadata coded as column attributes. The 'yamlet' dialect is valid 'YAML' with defaults and conventions chosen to improve readability. See ?yamlet, ?decorate, ?modify, ?io_csv, and ?ggplot.decorated.

Maintained by Tim Bergsma. Last updated 1 months ago.

3.8 match 2 stars 5.99 score 60 scripts 1 dependents

yihui

xaringan:Presentation Ninja

Create HTML5 slides with R Markdown and the JavaScript library 'remark.js' (<https://remarkjs.com>).

Maintained by Yihui Xie. Last updated 1 years ago.

markdown naruto ninja presentation presentation-ninja remarkjs rmarkdown rstudio slideshow

1.8 match 1.5k stars 12.69 score 948 scripts 10 dependents

pik-piam

remulator:R emulator

A collection of R tools for fitting model results.

Maintained by David Klein. Last updated 1 years ago.

4.4 match 5.00 score 11 scripts 6 dependents

alextkalinka

linkcomm:Tools for Generating, Visualizing, and Analysing Link Communities in Networks

Link communities reveal the nested and overlapping structure in networks, and uncover the key nodes that form connections to multiple communities. linkcomm provides a set of tools for generating, visualizing, and analysing link communities in networks of arbitrary size and type. The linkcomm package also includes tools for generating, visualizing, and analysing Overlapping Cluster Generator (OCG) communities. Kalinka and Tomancak (2011) <doi:10.1093/bioinformatics/btr311>.

Maintained by Alex T. Kalinka. Last updated 4 years ago.

clustering networks networks-biology visualization cpp

2.9 match 7 stars 7.53 score 115 scripts 4 dependents

jeffreyevans

spatialEco:Spatial Analysis and Modelling Utilities

Utilities to support spatial data manipulation, query, sampling and modelling in ecological applications. Functions include models for species population density, spatial smoothing, multivariate separability, point process model for creating pseudo- absences and sub-sampling, Quadrant-based sampling and analysis, auto-logistic modeling, sampling models, cluster optimization, statistical exploratory tools and raster-based metrics.

Maintained by Jeffrey S. Evans. Last updated 25 days ago.

biodiversity conservation ecology r-spatial raster spatial vector

2.3 match 110 stars 9.55 score 736 scripts 2 dependents

forestgeo

fgeo.plot:Plot ForestGEO Data

To help you access, transform, analyze, and visualize ForestGEO data, we developed a collection of R packages (<https://forestgeo.github.io/fgeo/>). This package, in particular, helps you to plot ForestGEO data. To learn more about ForestGEO visit <https://forestgeo.si.edu/>.

Maintained by Mauro Lepore. Last updated 3 years ago.

5.0 match 4 stars 4.26 score 5 scripts 1 dependents

bergsmat

tablet:Tabulate Descriptive Statistics in Multiple Formats

Creates a table of descriptive statistics for factor and numeric columns in a data frame. Displays these by groups, if any. Highly customizable, with support for 'html' and 'pdf' provided by 'kableExtra'. Respects original column order, column labels, and factor level order. See ?tablet.data.frame and vignettes.

Maintained by Tim Bergsma. Last updated 5 months ago.

3.8 match 3 stars 5.57 score 26 scripts

cbielow

PTXQC:Quality Report Generation for MaxQuant and mzTab Results

Generates Proteomics (PTX) quality control (QC) reports for shotgun LC-MS data analyzed with the MaxQuant software suite (from .txt files) or mzTab files (ideally from OpenMS 'QualityControl' tool). Reports are customizable (target thresholds, subsetting) and available in HTML or PDF format. Published in J. Proteome Res., Proteomics Quality Control: Quality Control Software for MaxQuant Results (2015) <doi:10.1021/acs.jproteome.5b00780>.

Maintained by Chris Bielow. Last updated 1 years ago.

drag-and-drop hacktoberfest heatmap match-between-runs maxquant metric mztab openms proteomics quality-control quality-metrics report

2.3 match 42 stars 9.35 score 105 scripts 1 dependents

aboulaboul

automl:Deep Learning with Metaheuristic

Fits from simple regression to highly customizable deep neural networks either with gradient descent or metaheuristic, using automatic hyper parameters tuning and custom cost function. A mix inspired by the common tricks on Deep Learning and Particle Swarm Optimization.

Maintained by Alex Boulangé. Last updated 5 years ago.

3.8 match 28 stars 5.61 score 29 scripts

ropensci

baRcodeR:Label Creation for Tracking and Collecting Data from Biological Samples

Tools to generate unique identifier codes and printable barcoded labels for the management of biological samples. The creation of unique ID codes and printable PDF files can be initiated by standard commands, user prompts, or through a GUI addin for R Studio. Biologically informative codes can be included for hierarchically structured sampling designs.

Maintained by Robert Colautti. Last updated 1 years ago.

3.0 match 36 stars 6.95 score 49 scripts

mqbssppe

bayesCureRateModel:Bayesian Cure Rate Modeling for Time-to-Event Data

A fully Bayesian approach in order to estimate a general family of cure rate models under the presence of covariates, see Papastamoulis and Milienos (2024) <doi:10.1007/s11749-024-00942-w>. The promotion time can be modelled (a) parametrically using typical distributional assumptions for time to event data (including the Weibull, Exponential, Gompertz, log-Logistic distributions), or (b) semiparametrically using finite mixtures of distributions. In both cases, user-defined families of distributions are allowed under some specific requirements. Posterior inference is carried out by constructing a Metropolis-coupled Markov chain Monte Carlo (MCMC) sampler, which combines Gibbs sampling for the latent cure indicators and Metropolis-Hastings steps with Langevin diffusion dynamics for parameter updates. The main MCMC algorithm is embedded within a parallel tempering scheme by considering heated versions of the target posterior distribution.

Maintained by Panagiotis Papastamoulis. Last updated 6 months ago.

openblas cpp

13.0 match 1.60 score 1 scripts

isubirana

compareGroups:Descriptive Analysis by Groups

Create data summaries for quality control, extensive reports for exploring data, as well as publication-ready univariate or bivariate tables in several formats (plain text, HTML,LaTeX, PDF, Word or Excel. Create figures to quickly visualise the distribution of your data (boxplots, barplots, normality-plots, etc.). Display statistics (mean, median, frequencies, incidences, etc.). Perform the appropriate tests (t-test, Analysis of variance, Kruskal-Wallis, Fisher, log-rank, ...) depending on the nature of the described variable (normal, non-normal or qualitative). Summarize genetic data (Single Nucleotide Polymorphisms) data displaying Allele Frequencies and performing Hardy-Weinberg Equilibrium tests among other typical statistics and tests for these kind of data.

Maintained by Isaac Subirana. Last updated 30 days ago.

comparegroups descriptive-statistics plot report table

2.4 match 36 stars 8.46 score 396 scripts 1 dependents

nicwir

QurvE:Robust and User-Friendly Analysis of Growth and Fluorescence Curves

High-throughput analysis of growth curves and fluorescence data using three methods: linear regression, growth model fitting, and smooth spline fit. Analysis of dose-response relationships via smoothing splines or dose-response models. Complete data analysis workflows can be executed in a single step via user-friendly wrapper functions. The results of these workflows are summarized in detailed reports as well as intuitively navigable 'R' data containers. A 'shiny' application provides access to all features without requiring any programming knowledge. The package is described in further detail in Wirth et al. (2023) <doi:10.1038/s41596-023-00850-7>.

Maintained by Nicolas T. Wirth. Last updated 1 years ago.

3.4 match 25 stars 6.00 score 7 scripts

fbartos

BayesTools:Tools for Bayesian Analyses

Provides tools for conducting Bayesian analyses and Bayesian model averaging (Kass and Raftery, 1995, <doi:10.1080/01621459.1995.10476572>, Hoeting et al., 1999, <doi:10.1214/ss/1009212519>). The package contains functions for creating a wide range of prior distribution objects, mixing posterior samples from 'JAGS' and 'Stan' models, plotting posterior distributions, and etc... The tools for working with prior distribution span from visualization, generating 'JAGS' and 'bridgesampling' syntax to basic functions such as rng, quantile, and distribution functions.

Maintained by František Bartoš. Last updated 2 months ago.

bayesian model-averaging

3.3 match 7 stars 6.06 score 17 scripts 3 dependents

frareb

inpdfr:Analyse Text Documents Using Ecological Tools

A set of functions to analyse and compare texts, using classical text mining functions, as well as those from theoretical ecology.

Maintained by Rebaudo Francois. Last updated 2 years ago.

4.5 match 2 stars 4.41 score 26 scripts

tnagler

VineCopula:Statistical Inference of Vine Copulas

Provides tools for the statistical analysis of regular vine copula models, see Aas et al. (2009) <doi:10.1016/j.insmatheco.2007.02.001> and Dissman et al. (2013) <doi:10.1016/j.csda.2012.08.010>. The package includes tools for parameter estimation, model selection, simulation, goodness-of-fit tests, and visualization. Tools for estimation, selection and exploratory data analysis of bivariate copula models are also provided.

Maintained by Thomas Nagler. Last updated 4 days ago.

copula estimation statistics vine

1.8 match 92 stars 11.07 score 362 scripts 23 dependents

xfim

ggmcmc:Tools for Analyzing MCMC Simulations from Bayesian Inference

Tools for assessing and diagnosing convergence of Markov Chain Monte Carlo simulations, as well as for graphically display results from full MCMC analysis. The package also facilitates the graphical interpretation of models by providing flexible functions to plot the results against observed variables, and functions to work with hierarchical/multilevel batches of parameters (Fernández-i-Marín, 2016 <doi:10.18637/jss.v070.i09>).

Maintained by Xavier Fernández i Marín. Last updated 2 years ago.

bayesian-data-analysis ggplot2 graphical jags mcmc stan

1.7 match 111 stars 11.94 score 1.6k scripts 8 dependents

ilarischeinin

rasterpdf:Plot Raster Graphics in PDF Files

The ability to plot raster graphics in PDF files can be useful when one needs multi-page documents, but the plots contain so many individual elements that (the usual) use of vector graphics results in inconveniently large file sizes. Internally, the package plots each individual page as a PNG, and then combines them in one PDF file.

Maintained by Ilari Scheinin. Last updated 4 years ago.

5.5 match 3 stars 3.52 score 22 scripts

dpc10ster

RJafroc:Artificial Intelligence Systems and Observer Performance

Analyzing the performance of artificial intelligence (AI) systems/algorithms characterized by a 'search-and-report' strategy. Historically observer performance has dealt with measuring radiologists' performances in search tasks, e.g., searching for lesions in medical images and reporting them, but the implicit location information has been ignored. The implemented methods apply to analyzing the absolute and relative performances of AI systems, comparing AI performance to a group of human readers or optimizing the reporting threshold of an AI system. In addition to performing historical receiver operating receiver operating characteristic (ROC) analysis (localization information ignored), the software also performs free-response receiver operating characteristic (FROC) analysis, where lesion localization information is used. A book using the software has been published: Chakraborty DP: Observer Performance Methods for Diagnostic Imaging - Foundations, Modeling, and Applications with R-Based Examples, Taylor-Francis LLC; 2017: <https://www.routledge.com/Observer-Performance-Methods-for-Diagnostic-Imaging-Foundations-Modeling/Chakraborty/p/book/9781482214840>. Online updates to this book, which use the software, are at <https://dpc10ster.github.io/RJafrocQuickStart/>, <https://dpc10ster.github.io/RJafrocRocBook/> and at <https://dpc10ster.github.io/RJafrocFrocBook/>. Supported data collection paradigms are the ROC, FROC and the location ROC (LROC). ROC data consists of single ratings per images, where a rating is the perceived confidence level that the image is that of a diseased patient. An ROC curve is a plot of true positive fraction vs. false positive fraction. FROC data consists of a variable number (zero or more) of mark-rating pairs per image, where a mark is the location of a reported suspicious region and the rating is the confidence level that it is a real lesion. LROC data consists of a rating and a location of the most suspicious region, for every image. Four models of observer performance, and curve-fitting software, are implemented: the binormal model (BM), the contaminated binormal model (CBM), the correlated contaminated binormal model (CORCBM), and the radiological search model (RSM). Unlike the binormal model, CBM, CORCBM and RSM predict 'proper' ROC curves that do not inappropriately cross the chance diagonal. Additionally, RSM parameters are related to search performance (not measured in conventional ROC analysis) and classification performance. Search performance refers to finding lesions, i.e., true positives, while simultaneously not finding false positive locations. Classification performance measures the ability to distinguish between true and false positive locations. Knowing these separate performances allows principled optimization of reader or AI system performance. This package supersedes Windows JAFROC (jackknife alternative FROC) software V4.2.1, <https://github.com/dpc10ster/WindowsJafroc>. Package functions are organized as follows. Data file related function names are preceded by 'Df', curve fitting functions by 'Fit', included data sets by 'dataset', plotting functions by 'Plot', significance testing functions by 'St', sample size related functions by 'Ss', data simulation functions by 'Simulate' and utility functions by 'Util'. Implemented are figures of merit (FOMs) for quantifying performance and functions for visualizing empirical or fitted operating characteristics: e.g., ROC, FROC, alternative FROC (AFROC) and weighted AFROC (wAFROC) curves. For fully crossed study designs significance testing of reader-averaged FOM differences between modalities is implemented via either Dorfman-Berbaum-Metz or the Obuchowski-Rockette methods. Also implemented is single modality analysis, which allows comparison of performance of a group of radiologists to a specified value, or comparison of AI to a group of radiologists interpreting the same cases. Crossed-modality analysis is implemented wherein there are two crossed modality factors and the aim is to determined performance in each modality factor averaged over all levels of the second factor. Sample size estimation tools are provided for ROC and FROC studies; these use estimates of the relevant variances from a pilot study to predict required numbers of readers and cases in a pivotal study to achieve the desired power. Utility and data file manipulation functions allow data to be read in any of the currently used input formats, including Excel, and the results of the analysis can be viewed in text or Excel output files. The methods are illustrated with several included datasets from the author's collaborations. This update includes improvements to the code, some as a result of user-reported bugs and new feature requests, and others discovered during ongoing testing and code simplification.

Maintained by Dev Chakraborty. Last updated 5 months ago.

ai-optimization artificial-intelligence-algorithms computer-aided-diagnosis froc-analysis roc-analysis target-classification target-localization cpp

3.4 match 19 stars 5.69 score 65 scripts

stemangiola

tidyHeatmap:A Tidy Implementation of Heatmap

This is a tidy implementation for heatmap. At the moment it is based on the (great) package 'ComplexHeatmap'. The goal of this package is to interface a tidy data frame with this powerful tool. Some of the advantages are: Row and/or columns colour annotations are easy to integrate just specifying one parameter (column names). Custom grouping of rows is easy to specify providing a grouped tbl. For example: df %>% group_by(...). Labels size adjusted by row and column total number. Default use of Brewer and Viridis palettes.

Maintained by Stefano Mangiola. Last updated 2 months ago.

assaydomain infrastructure brewer complexheatmap custom-palette dplyr graphviz heatmap mtcars plotting rstudio scale tibble tidy tidy-data-frame tidybulk tidyverse viridis

1.9 match 335 stars 10.23 score 197 scripts 1 dependents

repboxr

repboxArt:Converting articles from PDF to text and managing and extracting basic information including tables

Converting articles from PDF to text and managing and extracting basic information including tables

Maintained by Sebastian Kranz. Last updated 2 months ago.

5.2 match 1 stars 3.68 score 6 scripts 2 dependents

dppalomar

sparseIndexTracking:Design of Portfolio of Stocks to Track an Index

Computation of sparse portfolios for financial index tracking, i.e., joint selection of a subset of the assets that compose the index and computation of their relative weights (capital allocation). The level of sparsity of the portfolios, i.e., the number of selected assets, is controlled through a regularization parameter. Different tracking measures are available, namely, the empirical tracking error (ETE), downside risk (DR), Huber empirical tracking error (HETE), and Huber downside risk (HDR). See vignette for a detailed documentation and comparison, with several illustrative examples. The package is based on the paper: K. Benidis, Y. Feng, and D. P. Palomar, "Sparse Portfolios for High-Dimensional Financial Index Tracking," IEEE Trans. on Signal Processing, vol. 66, no. 1, pp. 155-170, Jan. 2018. <doi:10.1109/TSP.2017.2762286>.

Maintained by Daniel P. Palomar. Last updated 2 years ago.

financial-markets index portfolio tracking

2.9 match 52 stars 6.48 score 29 scripts

quanteda

readtext:Import and Handling for Plain and Formatted Text Files

Functions for importing and handling text files and formatted text files with additional meta-data, such including '.csv', '.tab', '.json', '.xml', '.html', '.pdf', '.doc', '.docx', '.rtf', '.xls', '.xlsx', and others.

Maintained by Kenneth Benoit. Last updated 4 months ago.

encoding quanteda text

1.8 match 122 stars 10.66 score 1.2k scripts 5 dependents

iohprofiler

IOHanalyzer:Data Analysis Part of 'IOHprofiler'

The data analysis module for the Iterative Optimization Heuristics Profiler ('IOHprofiler'). This module provides statistical analysis methods for the benchmark data generated by optimization heuristics, which can be visualized through a web-based interface. The benchmark data is usually generated by the experimentation module, called 'IOHexperimenter'. 'IOHanalyzer' also supports the widely used 'COCO' (Comparing Continuous Optimisers) data format for benchmarking.

Maintained by Diederick Vermetten. Last updated 10 months ago.

cpp

3.7 match 24 stars 5.10 score 13 scripts

insightsengineering

osprey:R Package to Create TLGs

Community effort to collect TLG code and create a catalogue.

Maintained by Nina Qi. Last updated 1 months ago.

catalog graphs listings nest tables

3.4 match 4 stars 5.38 score 1 dependents

gamlss-dev

gamlss.dist:Distributions for Generalized Additive Models for Location Scale and Shape

A set of distributions which can be used for modelling the response variables in Generalized Additive Models for Location Scale and Shape, Rigby and Stasinopoulos (2005), <doi:10.1111/j.1467-9876.2005.00510.x>. The distributions can be continuous, discrete or mixed distributions. Extra distributions can be created, by transforming, any continuous distribution defined on the real line, to a distribution defined on ranges 0 to infinity or 0 to 1, by using a 'log' or a 'logit' transformation respectively.

Maintained by Mikis Stasinopoulos. Last updated 1 months ago.

1.8 match 4 stars 10.51 score 346 scripts 71 dependents

cranhaven

rock:Reproducible Open Coding Kit

The Reproducible Open Coding Kit ('ROCK', and this package, 'rock') was developed to facilitate reproducible and open coding, specifically geared towards qualitative research methods. Although it is a general-purpose toolkit, three specific applications have been implemented, specifically an interface to the 'rENA' package that implements Epistemic Network Analysis ('ENA'), means to process notes from Cognitive Interviews ('CIs'), and means to work with decentralized construct taxonomies ('DCTs'). The 'ROCK' and this 'rock' package are described in the ROCK book <https://rockbook.org> and more information, such as tutorials, is available at <https://rock.science>.

Maintained by Gjalt-Jorn Peters. Last updated 20 days ago.

archived packages r-universe

5.4 match 5 stars 3.40 score

vubiostat

redcapAPI:Interface to 'REDCap'

Access data stored in 'REDCap' databases using the Application Programming Interface (API). 'REDCap' (Research Electronic Data CAPture; <https://projectredcap.org>, Harris, et al. (2009) <doi:10.1016/j.jbi.2008.08.010>, Harris, et al. (2019) <doi:10.1016/j.jbi.2019.103208>) is a web application for building and managing online surveys and databases developed at Vanderbilt University. The API allows users to access data and project meta data (such as the data dictionary) from the web programmatically. The 'redcapAPI' package facilitates the process of accessing data with options to prepare an analysis-ready data set consistent with the definitions in a database's data dictionary.

Maintained by Shawn Garbett. Last updated 21 days ago.

1.8 match 22 stars 10.47 score 134 scripts 2 dependents

wasquith

lmomco:L-Moments, Censored L-Moments, Trimmed L-Moments, L-Comoments, and Many Distributions

Extensive functions for Lmoments (LMs) and probability-weighted moments (PWMs), distribution parameter estimation, LMs for distributions, LM ratio diagrams, multivariate Lcomoments, and asymmetric (asy) trimmed LMs (TLMs). Maximum likelihood and maximum product spacings estimation are available. Right-tail and left-tail LM censoring by threshold or indicator variable are available. LMs of residual (resid) and reversed (rev) residual life are implemented along with 13 quantile operators for reliability analyses. Exact analytical bootstrap estimates of order statistics, LMs, and LM var-covars are available. Harri-Coble Tau34-squared Normality Test is available. Distributions with L, TL, and added (+) support for right-tail censoring (RC) encompass: Asy Exponential (Exp) Power [L], Asy Triangular [L], Cauchy [TL], Eta-Mu [L], Exp. [L], Gamma [L], Generalized (Gen) Exp Poisson [L], Gen Extreme Value [L], Gen Lambda [L, TL], Gen Logistic [L], Gen Normal [L], Gen Pareto [L+RC, TL], Govindarajulu [L], Gumbel [L], Kappa [L], Kappa-Mu [L], Kumaraswamy [L], Laplace [L], Linear Mean Residual Quantile Function [L], Normal [L], 3p log-Normal [L], Pearson Type III [L], Polynomial Density-Quantile 3 and 4 [L], Rayleigh [L], Rev-Gumbel [L+RC], Rice [L], Singh Maddala [L], Slash [TL], 3p Student t [L], Truncated Exponential [L], Wakeby [L], and Weibull [L].

Maintained by William Asquith. Last updated 2 months ago.

flood-frequency-analysis l-moments mle-estimation mps-estimation probability-distribution rainfall-frequency-analysis reliability-analysis risk-analysis survival-analysis

2.3 match 2 stars 8.06 score 458 scripts 38 dependents

marce10

warbleR:Streamline Bioacoustic Analysis

Functions aiming to facilitate the analysis of the structure of animal acoustic signals in 'R'. 'warbleR' makes use of the basic sound analysis tools from the packages 'tuneR' and 'seewave', and offers new tools for explore and quantify acoustic signal structure. The package allows to organize and manipulate multiple sound files, create spectrograms of complete recordings or individual signals in different formats, run several measures of acoustic structure, and characterize different structural levels in acoustic signals.

Maintained by Marcelo Araya-Salas. Last updated 2 months ago.

animal-acoustic-signals audio-processing bioacoustics spectrogram streamline-analysis cpp

1.7 match 56 stars 10.86 score 270 scripts 4 dependents

iembry

iemisctext:Irucka Embry's Miscellaneous Text Collection

An eclectic collection of short stories and poetry with topics on climate strange, connecting the geopolitical dots, the myth of us versus them, and the idiocy of war. Please refer to the COPYRIGHTS file and the text_citation.cff file for the reference copyright information and for the complete citations of the reference sources, respectively.

Maintained by Irucka Embry. Last updated 10 months ago.

4.2 match 4.30 score 8 scripts

jamescbell

gestate:Generalised Survival Trial Assessment Tool Environment

Provides tools to assist planning and monitoring of time-to-event trials under complicated censoring assumptions and/or non-proportional hazards. There are three main components: The first is analytic calculation of predicted time-to-event trial properties, providing estimates of expected hazard ratio, event numbers and power under different analysis methods. The second is simulation, allowing stochastic estimation of these same properties. Thirdly, it provides parametric event prediction using blinded trial data, including creation of prediction intervals. Methods are based upon numerical integration and a flexible object-orientated structure for defining event, censoring and recruitment distributions (Curves).

Maintained by James Bell. Last updated 2 years ago.

6.9 match 2 stars 2.60 score 8 scripts

pakillo

ANECAtools:Facilitando el proceso de acreditación en la ANECA

Herramientas para facilitar el proceso de solicitud de acreditación de profesorado en la ANECA.

Maintained by Francisco Rodríguez-Sánchez. Last updated 1 months ago.

5.4 match 20 stars 3.30 score 3 scripts

ropensci

hunspell:High-Performance Stemmer, Tokenizer, and Spell Checker

Low level spell checker and morphological analyzer based on the famous 'hunspell' library <https://hunspell.github.io>. The package can analyze or check individual words as well as parse text, latex, html or xml documents. For a more user-friendly interface use the 'spelling' package which builds on this package to automate checking of files, documentation and vignettes in all common formats.

Maintained by Jeroen Ooms. Last updated 6 days ago.

hunspell spell-check spellchecker stemmer tokenizer cpp

1.3 match 112 stars 13.23 score 422 scripts 30 dependents

dcomtois

summarytools:Tools to Quickly and Neatly Summarize Data

Data frame summaries, cross-tabulations, weight-enabled frequency tables and common descriptive (univariate) statistics in concise tables available in a variety of formats (plain ASCII, Markdown and HTML). A good point-of-entry for exploring data, both for experienced and new R users.

Maintained by Dominic Comtois. Last updated 3 days ago.

descriptive-statistics frequency-table html-report markdown pander pandoc pandoc-markdown rmarkdown rstudio

1.2 match 527 stars 14.62 score 2.9k scripts 6 dependents

mortamini

hhsmm:Hidden Hybrid Markov/Semi-Markov Model Fitting

Develops algorithms for fitting, prediction, simulation and initialization of the hidden hybrid Markov/semi-Markov model, introduced by Guedon (2005) <doi:10.1016/j.csda.2004.05.033>, which also includes several tools for handling missing data, nonparametric mixture of B-splines emissions (Langrock et al., 2015 <doi:10.1111/biom.12282>), fitting regime switching regression (Kim et al., 2008 <doi:10.1016/j.jeconom.2007.10.002>) and auto-regressive hidden hybrid Markov/semi-Markov model, and many other useful tools (read for more description: <arXiv:2109.12489>).

Maintained by Morteza Amini. Last updated 3 years ago.

7.0 match 3 stars 2.48 score 5 scripts

scholaempirica

reschola:The Schola Empirica Package

A collection of utilies, themes and templates for data analysis at Schola Empirica.

Maintained by Jan Netík. Last updated 6 months ago.

3.6 match 4 stars 4.83 score 14 scripts

yulab-smu

scholar:Analyse Citation Data from Google Scholar

Provides functions to extract citation data from Google Scholar. Convenience functions are also provided for comparing multiple scholars and predicting future h-index values.

Maintained by Guangchuang Yu. Last updated 1 years ago.

1.8 match 42 stars 9.60 score 468 scripts 3 dependents

schweflo

pdfminer:Read Portable Document Format (PDF) Files

Provides an interface to 'PDFMiner' <https://github.com/pdfminer/pdfminer.six> a 'Python' package for extracting information from 'PDF'-files. 'PDFMiner' has the goal to get all information available in a 'PDF'-file, position of the characters, font type, font size and informations about lines. Which makes it the perfect starting point for extracting tables from 'PDF'-files. More information can be found in the package 'README'-file.

Maintained by Florian Schwendinger. Last updated 5 years ago.

10.1 match 1.70 score 4 scripts

ucl

ADMUR:Ancient Demographic Modelling Using Radiocarbon

Statistical tools to directly model underlying population dynamics using date datasets (radiocarbon and other). Various model structures can be tested including Continuous Piecewise Linear (CPL) models that are flexible to estimate any complex population dynamics, Uniform, Exponential, Gaussian, Cauchy, Sinusoidal, Logistic and Power law. Bayesian parameter estimates of population models. Taphonomic loss included optionally as a power function. Model comparison framework using BIC. Package also calibrates 14C samples, generates Summed Probability Distributions (SPD), and performs SPD simulation analysis to generate a Goodness-of-fit test for the best selected model. Details about the method can be found in Timpson A., Barberena R., Thomas M. G., Mendez C., Manning K. (2020) <https://royalsocietypublishing.org/doi/10.1098/rstb.2019.0723>.

Maintained by Adrian Timpson. Last updated 2 years ago.

3.3 match 11 stars 5.22 score 15 scripts

bergsmat

plotscale:Scale Graphics Devices Using Plot Dimensions

Figures rendered on graphics devices are usually rescaled to fit pre-determined device dimensions. 'plotscale' implements the reverse: desired plot dimensions are specified and device dimensions are calculated to accommodate marginal material, giving consistent proportions for plot elements. Default methods support grid graphics such as lattice and ggplot. See "example('devsize')" and "vignette('plotscale')".

Maintained by Tim Bergsma. Last updated 7 years ago.

7.3 match 2.36 score 23 scripts

gcicc

figuRes2:Support for a Variety of Figure Production Tasks

We view a figure as a collection of graphs/tables assembled on a page and optionally annotated with metadata (titles, headers and footers). Functions and supporting documentation are offered to streamline a variety of figure production task.

Maintained by Greg Cicconetti. Last updated 3 years ago.

3.5 match 3 stars 4.78 score

gpilgrim2670

SwimmeR:Data Import, Cleaning, and Conversions for Swimming Results

The goal of the 'SwimmeR' package is to provide means of acquiring, and then analyzing, data from swimming (and diving) competitions. To that end 'SwimmeR' allows results to be read in from .html sources, like 'Hy-Tek' real time results pages, '.pdf' files, 'ISL' results, 'Omega' results, and (on a development basis) '.hy3' files. Once read in, 'SwimmeR' can convert swimming times (performances) between the computationally useful format of seconds reported to the '100ths' place (e.g. 95.37), and the conventional reporting format (1:35.37) used in the swimming community. 'SwimmeR' can also score meets in a variety of formats with user defined point values, convert times between courses ('LCM', 'SCM', 'SCY') and draw single elimination brackets, as well as providing a suite of tools for working cleaning swimming data. This is a developmental package, not yet mature.

Maintained by Greg Pilgrim. Last updated 2 years ago.

3.6 match 4 stars 4.53 score 17 scripts

rohanalexander

heapsofpapers:Easily Download Heaps of PDF and CSV Files

Makes it easy to download a large number of files such as PDF files and CSV files, while automatically slowing down requests, letting you know where it is up to, and adjusting for files that have already been downloaded.

Maintained by Rohan Alexander. Last updated 4 years ago.

3.4 match 2 stars 4.78 score 12 scripts

epiverse-trace

epiparameter:Classes and Helper Functions for Working with Epidemiological Parameters

Classes and helper functions for loading, extracting, converting, manipulating, plotting and aggregating epidemiological parameters for infectious diseases. Epidemiological parameters extracted from the literature are loaded from the 'epiparameterDB' R package.

Maintained by Joshua W. Lambert. Last updated 2 months ago.

data-access data-package epidemiology epiverse probability-distribution

1.7 match 34 stars 9.82 score 102 scripts 1 dependents

cran

DISTRIB:Four Essential Functions for Statistical Distributions Analysis: A New Functional Approach

A different way for calculating pdf/pmf, cdf, quantile and random data such that the user is able to consider the name of related distribution as an argument and so easily can changed by a changing argument by user. It must be mentioned that the core and computation base of package 'DISTRIB' is package 'stats'. Although similar functions are introduced previously in package 'stats', but the package 'DISTRIB' has some special applications in some special computational programs.

Maintained by Abbas Parchami. Last updated 8 years ago.

5.5 match 2.95 score 3 dependents

setzler

textab:Create Highly-Customized 'LaTeX' Tables

Generate 'LaTeX' tables directly from R. It builds 'LaTeX' tables in blocks in the spirit of 'ggplot2' using the '+' and '/' operators for concatenation in the vertical and horizontal dimensions, respectively. It exports tables in the 'LaTeX' tabular environment using '.tex' code. It can compile '.tex' code to 'PDF' automatically.

Maintained by Bradley Setzler. Last updated 2 years ago.

3.5 match 4 stars 4.60 score 9 scripts

optad

adoptr:Adaptive Optimal Two-Stage Designs

Optimize one or two-arm, two-stage designs for clinical trials with respect to several implemented objective criteria or custom objectives. Optimization under uncertainty and conditional (given stage-one outcome) constraints are supported. See Pilz et al. (2019) <doi:10.1002/sim.8291> and Kunzmann et al. (2021) <doi:10.18637/jss.v098.i09> for details.

Maintained by Maximilian Pilz. Last updated 6 months ago.

2.3 match 1 stars 7.09 score 39 scripts 1 dependents

bioc

MSstats:Protein Significance Analysis in DDA, SRM and DIA for Label-free or Label-based Proteomics Experiments

A set of tools for statistical relative protein significance analysis in DDA, SRM and DIA experiments.

Maintained by Meena Choi. Last updated 23 days ago.

immunooncology massspectrometry proteomics software normalization qualitycontrol timecourse openblas cpp

1.9 match 8.49 score 164 scripts 7 dependents

nceas

scicomptools:Tools Developed by the NCEAS Scientific Computing Support Team

Set of tools to import, summarize, wrangle, and visualize data. These functions were originally written based on the needs of the various synthesis working groups that were supported by the National Center for Ecological Analysis and Synthesis (NCEAS). These tools are meant to be useful inside and outside of the context for which they were designed.

Maintained by Angel Chen. Last updated 5 months ago.

data-science

3.0 match 9 stars 5.26 score 6 scripts

kurthornik

Rpoppler:PDF Tools Based on Poppler

PDF tools based on the Poppler PDF rendering library. See <http://poppler.freedesktop.org/> for more information on Poppler.

Maintained by Kurt Hornik. Last updated 8 months ago.

poppler glib

12.0 match 1.32 score 8 scripts

american-institutes-for-research

EdSurvey:Analysis of NCES Education Survey and Assessment Data

Read in and analyze functions for education survey and assessment data from the National Center for Education Statistics (NCES) <https://nces.ed.gov/>, including National Assessment of Educational Progress (NAEP) data <https://nces.ed.gov/nationsreportcard/> and data from the International Assessment Database: Organisation for Economic Co-operation and Development (OECD) <https://www.oecd.org/en/about/directorates/directorate-for-education-and-skills.html>, including Programme for International Student Assessment (PISA), Teaching and Learning International Survey (TALIS), Programme for the International Assessment of Adult Competencies (PIAAC), and International Association for the Evaluation of Educational Achievement (IEA) <https://www.iea.nl/>, including Trends in International Mathematics and Science Study (TIMSS), TIMSS Advanced, Progress in International Reading Literacy Study (PIRLS), International Civic and Citizenship Study (ICCS), International Computer and Information Literacy Study (ICILS), and Civic Education Study (CivEd).

Maintained by Paul Bailey. Last updated 28 days ago.

2.0 match 10 stars 7.86 score 139 scripts 1 dependents

enblacar

SCpubr:Generate Publication Ready Visualizations of Single Cell Transcriptomics Data

A system that provides a streamlined way of generating publication ready plots for known Single-Cell transcriptomics data in a “publication ready” format. This is, the goal is to automatically generate plots with the highest quality possible, that can be used right away or with minimal modifications for a research article.

Maintained by Enrique Blanco-Carmona. Last updated 1 months ago.

software singlecell visualization data-visualization ggplot2 publication-quality-plots seurat single-cell single-cell-genomics single-cell-rna-seq

1.8 match 178 stars 8.71 score 194 scripts

alishinski

lavaanPlot:Path Diagrams for 'Lavaan' Models via 'DiagrammeR'

Plots path diagrams from models in 'lavaan' using the plotting functionality from the 'DiagrammeR' package. 'DiagrammeR' provides nice path diagrams via 'Graphviz', and these functions make it easy to generate these diagrams from a 'lavaan' path model without having to write the DOT language graph specification.

Maintained by Alex Lishinski. Last updated 1 years ago.

1.9 match 40 stars 8.33 score 294 scripts

brry

rdwd:Select and Download Climate Data from 'DWD' (German Weather Service)

Handle climate data from the 'DWD' ('Deutscher Wetterdienst', see <https://www.dwd.de/EN/climate_environment/cdc/cdc_node_en.html> for more information). Choose observational time series from meteorological stations with 'selectDWD()'. Find raster data from radar and interpolation according to <https://bookdown.org/brry/rdwd/raster-data.html>. Download (multiple) data sets with progress bars and no re-downloads through 'dataDWD()'. Read both tabular observational data and binary gridded datasets with 'readDWD()'.

Maintained by Berry Boessenkool. Last updated 1 days ago.

2.0 match 71 stars 7.79 score 79 scripts

anikoszabo

CorrBin:Nonparametrics with Clustered Binary and Multinomial Data

Implements non-parametric analyses for clustered binary and multinomial data. The elements of the cluster are assumed exchangeable, and identical joint distribution (also known as marginal compatibility, or reproducibility) is assumed for clusters of different sizes. A trend test based on stochastic ordering is implemented. Szabo A, George EO. (2010) <doi:10.1093/biomet/asp077>; George EO, Cheon K, Yuan Y, Szabo A (2016) <doi:10.1093/biomet/asw009>.

Maintained by Aniko Szabo. Last updated 7 months ago.

4.5 match 3.45 score 28 scripts

flavjack

inti:Tools and Statistical Procedures in Plant Science

The 'inti' package is part of the 'inkaverse' project for developing different procedures and tools used in plant science and experimental designs. The mean aim of the package is to support researchers during the planning of experiments and data collection (tarpuy()), data analysis and graphics (yupana()) , and technical writing. Learn more about the 'inkaverse' project at <https://inkaverse.com/>.

Maintained by Flavio Lozano-Isla. Last updated 13 days ago.

agriculture apps inkaverse lmm plant-breeding plant-science shiny

1.9 match 5 stars 8.27 score 193 scripts

mthrun

AdaptGauss:Gaussian Mixture Models (GMM)

Multimodal distributions can be modelled as a mixture of components. The model is derived using the Pareto Density Estimation (PDE) for an estimation of the pdf. PDE has been designed in particular to identify groups/classes in a dataset. Precise limits for the classes can be calculated using the theorem of Bayes. Verification of the model is possible by QQ plot, Chi-squared test and Kolmogorov-Smirnov test. The package is based on the publication of Ultsch, A., Thrun, M.C., Hansen-Goos, O., Lotsch, J. (2015) <DOI:10.3390/ijms161025897>.

Maintained by Michael Thrun. Last updated 2 years ago.

cpp

2.5 match 1 stars 6.12 score 25 scripts 5 dependents

aqlt

rjdmarkdown:'rmarkdown' Extension for Formatted 'RJDemetra' Outputs

Functions to have nice 'rmarkdown' outputs of the seasonal and trading day adjustment models made with 'RJDemetra'.

Maintained by Alain Quartier-la-Tente. Last updated 8 months ago.

rjdemetra rmarkdown openjdk

3.3 match 4 stars 4.60 score 9 scripts

squ4reanalytics

D4TAlink.light:FAIR Data - Workflow Management

Tools, methods and processes for the management of analysis workflows. These lightweight solutions facilitate structuring R&D activities. These solutions were developed to comply with Good Documentation Practice (GDP), with FAIR principles as discussed by Jacobsen et al. (2017) <doi:10.1162/dint_r_00024>, and with ALCOA+ principles as proposed by the U.S. FDA.

Maintained by Gregoire Thomas. Last updated 4 months ago.

3.5 match 4.30 score

insightsengineering

teal.code:Code Storage and Execution Class for 'teal' Applications

Introduction of 'qenv' S4 class, that facilitates code execution and reproducibility in 'teal' applications.

Maintained by Dawid Kaledkowski. Last updated 1 months ago.

nest shiny

1.7 match 12 stars 9.03 score 11 scripts 9 dependents

mages

googleVis:R Interface to Google Charts

R interface to Google's chart tools, allowing users to create interactive charts based on data frames. Charts are displayed locally via the R HTTP help server. A modern browser with an Internet connection is required. The data remains local and is not uploaded to Google.

Maintained by Markus Gesmann. Last updated 10 months ago.

1.2 match 362 stars 13.06 score 2.4k scripts 12 dependents

peleplay

integr:An Implementation of Interaction Graphs of Aleks Jakulin

Generates a 'Graphviz' graph of the most significant 3-way interaction gains (i.e. conditional information gains) based on a provided discrete data frame. Various output formats are supported ('Graphviz', SVG, PNG, PDF, PS). For references, see the webpage of Aleks Jakulin <http://stat.columbia.edu/~jakulin/Int/>.

Maintained by Petar Markovic. Last updated 6 years ago.

3.6 match 3 stars 4.18 score 3 scripts

pik-piam

mip:Comparison of multi-model runs

Package contains generic functions to produce comparison plots of multi-model runs.

Maintained by David Klein. Last updated 3 days ago.

1.9 match 1 stars 8.07 score 70 scripts 21 dependents

usepa

spsurvey:Spatial Sampling Design and Analysis

A design-based approach to statistical inference, with a focus on spatial data. Spatially balanced samples are selected using the Generalized Random Tessellation Stratified (GRTS) algorithm. The GRTS algorithm can be applied to finite resources (point geometries) and infinite resources (linear / linestring and areal / polygon geometries) and flexibly accommodates a diverse set of sampling design features, including stratification, unequal inclusion probabilities, proportional (to size) inclusion probabilities, legacy (historical) sites, a minimum distance between sites, and two options for replacement sites (reverse hierarchical order and nearest neighbor). Data are analyzed using a wide range of analysis functions that perform categorical variable analysis, continuous variable analysis, attributable risk analysis, risk difference analysis, relative risk analysis, change analysis, and trend analysis. spsurvey can also be used to summarize objects, visualize objects, select samples that are not spatially balanced, select panel samples, measure the amount of spatial balance in a sample, adjust design weights, and more. For additional details, see Dumelle et al. (2023) <doi:10.18637/jss.v105.i03>.

Maintained by Michael Dumelle. Last updated 7 months ago.

ord

1.7 match 15 stars 8.94 score 241 scripts 1 dependents

poissonconsulting

subfoldr2:Save and Load R Objects

Facilitates saving and loading R objects, data frames, tables, plots, text blocks and numbers to subfolders.

Maintained by Joe Thorley. Last updated 26 days ago.

4.0 match 2 stars 3.70 score 5 scripts

cwatson

brainGraph:Graph Theory Analysis of Brain MRI Data

A set of tools for performing graph theory analysis of brain MRI data. It works with data from a Freesurfer analysis (cortical thickness, volumes, local gyrification index, surface area), diffusion tensor tractography data (e.g., from FSL) and resting-state fMRI data (e.g., from DPABI). It contains a graphical user interface for graph visualization and data exploration, along with several functions for generating useful figures.

Maintained by Christopher G. Watson. Last updated 1 years ago.

brain-connectivity brain-imaging complex-networks connectome connectomics fmri graph-theory mri network-analysis neuroimaging neuroscience statistics tractography

1.9 match 188 stars 7.86 score 107 scripts 3 dependents

dstanley4

apaTables:Create American Psychological Association (APA) Style Tables

A common task faced by researchers is the creation of APA style (i.e., American Psychological Association style) tables from statistical output. In R a large number of function calls are often needed to obtain all of the desired information for a single APA style table. As well, the process of manually creating APA style tables in a word processor is prone to transcription errors. This package creates Word files (.doc files) and latex code containing APA style tables for several types of analyses. Using this package minimizes transcription errors and reduces the number commands needed by the user.

Maintained by David Stanley. Last updated 6 months ago.

1.9 match 61 stars 7.86 score 438 scripts

dkaschek

dMod:Dynamic Modeling and Parameter Estimation in ODE Models

The framework provides functions to generate ODEs of reaction networks, parameter transformations, observation functions, residual functions, etc. The framework follows the paradigm that derivative information should be used for optimization whenever possible. Therefore, all major functions produce and can handle expressions for symbolic derivatives.

Maintained by Daniel Kaschek. Last updated 22 days ago.

1.8 match 20 stars 8.35 score 251 scripts

martin3141

spant:MR Spectroscopy Analysis Tools

Tools for reading, visualising and processing Magnetic Resonance Spectroscopy data. The package includes methods for spectral fitting: Wilson (2021) <DOI:10.1002/mrm.28385> and spectral alignment: Wilson (2018) <DOI:10.1002/mrm.27605>.

Maintained by Martin Wilson. Last updated 8 hours ago.

brain mri mrs mrshub spectroscopy fortran

1.7 match 25 stars 8.52 score 81 scripts

openpharma

crmPack:Object-Oriented Implementation of CRM Designs

Implements a wide range of model-based dose escalation designs, ranging from classical and modern continual reassessment methods (CRMs) based on dose-limiting toxicity endpoints to dual-endpoint designs taking into account a biomarker/efficacy outcome. The focus is on Bayesian inference, making it very easy to setup a new design with its own JAGS code. However, it is also possible to implement 3+3 designs for comparison or models with non-Bayesian estimation. The whole package is written in a modular form in the S4 class system, making it very flexible for adaptation to new models, escalation or stopping rules. Further details are presented in Sabanes Bove et al. (2019) <doi:10.18637/jss.v089.i10>.

Maintained by Daniel Sabanes Bove. Last updated 2 months ago.

jags cpp

1.9 match 21 stars 7.76 score 208 scripts

hughparsonage

hutils:Miscellaneous R Functions and Aliases

Provides utility functions for, and drawing on, the 'data.table' package. The package also collates useful miscellaneous functions extending base R not available elsewhere. The name is a portmanteau of 'utils' and the author.

Maintained by Hugh Parsonage. Last updated 2 years ago.

1.9 match 12 stars 7.76 score 219 scripts 8 dependents

spsanderson

TidyDensity:Functions for Tidy Analysis and Generation of Random Data

To make it easy to generate random numbers based upon the underlying stats distribution functions. All data is returned in a tidy and structured format making working with the data simple and straight forward. Given that the data is returned in a tidy 'tibble' it lends itself to working with the rest of the 'tidyverse'.

Maintained by Steven Sanderson. Last updated 5 months ago.

bootstrap density distributions ggplot2 probability r-language simulation statistics tibble tidy

1.9 match 34 stars 7.73 score 66 scripts 1 dependents

afialkowski

SimCorrMix:Simulation of Correlated Data with Multiple Variable Types Including Continuous and Count Mixture Distributions

Generate continuous (normal, non-normal, or mixture distributions), binary, ordinal, and count (regular or zero-inflated, Poisson or Negative Binomial) variables with a specified correlation matrix, or one continuous variable with a mixture distribution. This package can be used to simulate data sets that mimic real-world clinical or genetic data sets (i.e., plasmodes, as in Vaughan et al., 2009 <DOI:10.1016/j.csda.2008.02.032>). The methods extend those found in the 'SimMultiCorrData' R package. Standard normal variables with an imposed intermediate correlation matrix are transformed to generate the desired distributions. Continuous variables are simulated using either Fleishman (1978)'s third order <DOI:10.1007/BF02293811> or Headrick (2002)'s fifth order <DOI:10.1016/S0167-9473(02)00072-5> polynomial transformation method (the power method transformation, PMT). Non-mixture distributions require the user to specify mean, variance, skewness, standardized kurtosis, and standardized fifth and sixth cumulants. Mixture distributions require these inputs for the component distributions plus the mixing probabilities. Simulation occurs at the component level for continuous mixture distributions. The target correlation matrix is specified in terms of correlations with components of continuous mixture variables. These components are transformed into the desired mixture variables using random multinomial variables based on the mixing probabilities. However, the package provides functions to approximate expected correlations with continuous mixture variables given target correlations with the components. Binary and ordinal variables are simulated using a modification of ordsample() in package 'GenOrd'. Count variables are simulated using the inverse CDF method. There are two simulation pathways which calculate intermediate correlations involving count variables differently. Correlation Method 1 adapts Yahav and Shmueli's 2012 method <DOI:10.1002/asmb.901> and performs best with large count variable means and positive correlations or small means and negative correlations. Correlation Method 2 adapts Barbiero and Ferrari's 2015 modification of the 'GenOrd' package <DOI:10.1002/asmb.2072> and performs best under the opposite scenarios. The optional error loop may be used to improve the accuracy of the final correlation matrix. The package also contains functions to calculate the standardized cumulants of continuous mixture distributions, check parameter inputs, calculate feasible correlation boundaries, and summarize and plot simulated variables.

Maintained by Allison Cynthia Fialkowski. Last updated 7 years ago.

2.8 match 5 stars 5.24 score 14 scripts

nsj3

riojaPlot:Stratigraphic Diagrams in R

Stratigraphic diagrams in R.

Maintained by Steve Juggins. Last updated 3 months ago.

3.1 match 18 stars 4.60 score 11 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 4 months ago.

2.3 match 7 stars 6.28 score 8 scripts

edubruell

tidyllm:Tidy Integration of Large Language Models

A tidy interface for integrating large language model (LLM) APIs such as 'Claude', 'Openai', 'Gemini','Mistral' and local models via 'Ollama' into R workflows. The package supports text and media-based interactions, interactive message history, batch request APIs, and a tidy, pipeline-oriented interface for streamlined integration into data workflows. Web services are available at <https://www.anthropic.com>, <https://openai.com>, <https://aistudio.google.com/>, <https://mistral.ai/> and <https://ollama.com>.

Maintained by Eduard Brüll. Last updated 7 hours ago.

1.8 match 70 stars 7.87 score 26 scripts

adrian-bowman

sm:Smoothing Methods for Nonparametric Regression and Density Estimation

This is software linked to the book 'Applied Smoothing Techniques for Data Analysis - The Kernel Approach with S-Plus Illustrations' Oxford University Press.

Maintained by Adrian Bowman. Last updated 1 years ago.

fortran

2.0 match 1 stars 6.99 score 732 scripts 36 dependents

forsbergpyschometrics

D3mirt:Descriptive 3D Multidimensional Item Response Theory Modelling

For identifying, estimating, and plotting descriptive multidimensional item response theory models, restricted to 3D and dichotomous or polytomous data that fit the two-parameter logistic model or the graded response model. The method is foremost explorative and centered around the plot function that exposes item characteristics and constructs, represented by vector arrows, located in a three-dimensional interactive latent space. The results can be useful for item-level analysis as well as test development.

Maintained by Erik Forsberg. Last updated 1 months ago.

2.9 match 4.70 score 4 scripts

emilopezcano

SixSigma:Six Sigma Tools for Quality Control and Improvement

Functions and utilities to perform Statistical Analyses in the Six Sigma way. Through the DMAIC cycle (Define, Measure, Analyze, Improve, Control), you can manage several Quality Management studies: Gage R&R, Capability Analysis, Control Charts, Loss Function Analysis, etc. Data frames used in the books "Six Sigma with R" [ISBN 978-1-4614-3652-2] and "Quality Control with R" [ISBN 978-3-319-24046-6], are also included in the package.

Maintained by Emilio L. Cano. Last updated 2 years ago.

quality-control quality-improvement six-sigma spc

1.8 match 15 stars 7.82 score 169 scripts 1 dependents

bioc

shiny.gosling:A Grammar-based Toolkit for Scalable and Interactive Genomics Data Visualization for R and Shiny

A Grammar-based Toolkit for Scalable and Interactive Genomics Data Visualization. http://gosling-lang.org/. This R package is based on gosling.js. It uses R functions to create gosling plots that could be embedded onto R Shiny apps.

Maintained by Appsilon. Last updated 5 months ago.

shinyapps genetics visualization

2.3 match 6.08 score 53 scripts 1 dependents

ropensci

tesseract:Open Source OCR Engine

Bindings to 'Tesseract': a powerful optical character recognition (OCR) engine that supports over 100 languages. The engine is highly configurable in order to tune the detection algorithms and obtain the best possible results.

Maintained by Jeroen Ooms. Last updated 5 days ago.

ocr tesseract tesseract-ocr cpp

1.3 match 247 stars 10.19 score 482 scripts

mspeekenbrink

sdamr:Statistics: Data Analysis and Modelling

Data sets and functions to support the books "Statistics: Data analysis and modelling" by Speekenbrink, M. (2021) <https://mspeekenbrink.github.io/sdam-book/> and "An R companion to Statistics: data analysis and modelling" by Speekenbrink, M. (2021) <https://mspeekenbrink.github.io/sdam-r-companion/>. All datasets analysed in these books are provided in this package. In addition, the package provides functions to compute sample statistics (variance, standard deviation, mode), create raincloud and enhanced Q-Q plots, and expand Anova results into omnibus tests and tests of individual contrasts.

Maintained by Maarten Speekenbrink. Last updated 2 months ago.

3.1 match 5 stars 4.39 score 99 scripts

mlizhangx

NAIR:Network Analysis of Immune Repertoire

Pipelines for studying the adaptive immune repertoire of T cells and B cells via network analysis based on receptor sequence similarity. Relate clinical outcomes to immune repertoires based on their network properties, or to particular clusters and clones within a repertoire. Yang et al. (2023) <doi:10.3389/fimmu.2023.1181825>.

Maintained by Brian Neal. Last updated 2 months ago.

cpp openmp

2.0 match 7 stars 6.66 score 27 scripts

moosa-r

rbioapi:User-Friendly R Interface to Biologic Web Services' API

Currently fully supports Enrichr, JASPAR, miEAA, PANTHER, Reactome, STRING, and UniProt! The goal of rbioapi is to provide a user-friendly and consistent interface to biological databases and services. In a way that insulates the user from the technicalities of using web services API and creates a unified and easy-to-use interface to biological and medical web services. This is an ongoing project; New databases and services will be added periodically. Feel free to suggest any databases or services you often use.

Maintained by Moosa Rezwani. Last updated 2 months ago.

api-client bioinformatics biology enrichment enrichment-analysis enrichr jaspar mieaa over-representation-analysis panther reactome string uniprot

1.8 match 20 stars 7.60 score 55 scripts

mjuraska

seqDesign:Simulation and Group-Sequential Monitoring of Randomized Treatment Efficacy Trials with Time-to-Event Endpoints

A broad spectrum of both event-driven and fixed follow-up preventive vaccine efficacy trial designs, including designs of Gilbert, Grove et al. (2011, Statistical Communications in Infectious Diseases), are implemented, with application generally to individual-randomized clinical trials with multiple active treatment groups and a shared control group, and a study endpoint that is a time-to-event endpoint subject to right-censoring. The design accommodates the following features: (1) the possibility that the efficacy of the treatment/vaccine groups may take time to accrue while the multiple treatment administrations/vaccinations are given, (2) hazard ratio and cumulative incidence-based treatment/vaccine efficacy parameters and multiple estimation/hypothesis testing procedures are available, (3) interim/group-sequential monitoring of each treatment group for potential harm, non-efficacy (lack of benefit), efficacy (benefit), and high efficacy, (3) arbitrary alpha spending functions for different monitoring outcomes, (4) arbitrary timing of interim looks, separate for each monitoring outcome, in terms of either event accrual or calendar time, (5) flexible analysis cohort characterization (intention-to-treat vs. per-protocol/as-treated; counting only events for analysis that occur after a specific point in study time), and (6) division of the trial into two stages of time periods where each treatment is first evaluated for efficacy in the first stage of follow-up, and, if and only if it shows significant treatment efficacy in stage one, it is evaluated for longer-term durability of efficacy in stage two. The package produces plots and tables describing operating characteristics of a specified design including a description of monitoring boundaries on multiple scales for the different outcomes; event accrual since trial initiation; probabilities of stopping early for potential harm, non-efficacy, etc.; an unconditional power for intention-to-treat and per-protocol analyses; calendar time to crossing a monitoring boundary or reaching the target number of endpoints if no boundary is crossed; trial duration; unconditional power for comparing treatment efficacies; and the distribution of the number of endpoints within an arbitrary study time interval (e.g., events occurring after the treatments/vaccinations are given), useful as input parameters for the design of studies of the association of biomarkers with a clinical outcome (surrogate endpoint problem). The code can be used for a single active treatment versus control design and for a single-stage design.

Maintained by Michal Juraska. Last updated 2 years ago.

2.9 match 2 stars 4.60 score 7 scripts

bcgov

fasstr:Analyze, Summarize, and Visualize Daily Streamflow Data

The Flow Analysis Summary Statistics Tool for R, 'fasstr', provides various functions to tidy and screen daily stream discharge data, calculate and visualize various summary statistics and metrics, and compute annual trending and volume frequency analyses. It features useful function arguments for filtering of and handling dates, customizing data and metrics, and the ability to pull daily data directly from the Water Survey of Canada hydrometric database (<https://collaboration.cmc.ec.gc.ca/cmc/hydrometrics/www/>).

Maintained by Jon Goetz. Last updated 6 months ago.

bcgov for frequency-analysis hydat hydrology streamflow summary-statistics trends water

1.8 match 57 stars 7.48 score 89 scripts

bupaverse

processmapR:Construct Process Maps Using Event Data

Visualize event logs using directed graphs, i.e. process maps. Part of the 'bupaR' framework.

Maintained by Gert Janssenswillen. Last updated 7 months ago.

cpp

1.7 match 9 stars 7.64 score 169 scripts 3 dependents

feddelegrand7

ralger:Easy Web Scraping

The goal of 'ralger' is to facilitate web scraping in R.

Maintained by Mohamed El Fodil Ihaddaden. Last updated 9 months ago.

dataextraction webcrawling webscraper-website webscraping

1.8 match 155 stars 7.41 score 33 scripts

tnagler

vinereg:D-Vine Quantile Regression

Implements D-vine quantile regression models with parametric or nonparametric pair-copulas. See Kraus and Czado (2017) <doi:10.1016/j.csda.2016.12.009> and Schallhorn et al. (2017) <doi:10.48550/arXiv.1705.08310>.

Maintained by Thomas Nagler. Last updated 3 months ago.

copula estimation statistics vine cpp

2.3 match 11 stars 5.76 score 26 scripts

ropensci

medrxivr:Access and Search MedRxiv and BioRxiv Preprint Data

An increasingly important source of health-related bibliographic content are preprints - preliminary versions of research articles that have yet to undergo peer review. The two preprint repositories most relevant to health-related sciences are medRxiv <https://www.medrxiv.org/> and bioRxiv <https://www.biorxiv.org/>, both of which are operated by the Cold Spring Harbor Laboratory. 'medrxivr' provides programmatic access to the 'Cold Spring Harbour Laboratory (CSHL)' API <https://api.biorxiv.org/>, allowing users to easily download medRxiv and bioRxiv preprint metadata (e.g. title, abstract, publication date, author list, etc) into R. 'medrxivr' also provides functions to search the downloaded preprint records using regular expressions and Boolean logic, as well as helper functions that allow users to export their search results to a .BIB file for easy import to a reference manager and to download the full-text PDFs of preprints matching their search criteria.

Maintained by Yaoxiang Li. Last updated 2 months ago.

bibliographic-database biorxiv evidence-synthesis medrxiv-data peer-reviewed preprint-records systematic-reviews

1.8 match 56 stars 7.17 score 44 scripts

emmanuelcharpentier

patchSynctex:Communication Between Editor and Viewer for Literate Programs

This utility eases the debugging of literate documents ('noweb' files) by patching the synchronization information (the '.synctex(.gz)' file) produced by 'pdflatex' with concordance information produced by 'Sweave' or 'knitr' and 'Sweave' or 'knitr' ; this allows for bilateral communication between a text editor (visualizing the 'noweb' source) and a viewer (visualizing the resultant 'PDF'), thus bypassing the intermediate 'TeX' file.

Maintained by Emmanuel Charpentier. Last updated 8 years ago.

4.1 match 1 stars 3.18 score 30 scripts

strohne

volker:High-Level Functions for Tabulating, Charting and Reporting Survey Data

Craft polished tables and plots in Markdown reports. Simply choose whether to treat your data as counts or metrics, and the package will automatically generate well-designed default tables and plots for you. Boiled down to the basics, with labeling features and simple interactive reports. All functions are 'tidyverse' compatible.

Maintained by Jakob Jünger. Last updated 15 days ago.

1.8 match 5 stars 7.16 score 125 scripts