R-universe search: http

ropensci

crul:HTTP Client

A simple HTTP client, with tools for making HTTP requests, and mocking HTTP requests. The package is built on R6, and takes inspiration from Ruby's 'faraday' gem (<https://rubygems.org/gems/faraday>). The package name is a play on curl, the widely used command line tool for HTTP, and this package is built on top of the R package 'curl', an interface to 'libcurl' (<https://curl.se/libcurl/>).

Maintained by Scott Chamberlain. Last updated 8 months ago.

http https api web-services curl download libcurl async mocking caching

44.4 match 107 stars 14.07 score 240 scripts 168 dependents

r-lib

httr:Tools for Working with URLs and HTTP

Useful tools for working with HTTP organised by HTTP verbs (GET(), POST(), etc). Configuration functions make it easy to control additional request components (authenticate(), add_headers() and so on).

Maintained by Hadley Wickham. Last updated 1 years ago.

api curl http

22.7 match 989 stars 20.56 score 29k scripts 4.3k dependents

r-lib

httr2:Perform HTTP Requests and Process the Responses

Tools for creating and modifying HTTP requests, then performing them and processing the results. 'httr2' is a modern re-imagining of 'httr' that uses a pipe-based interface and solves more of the problems that API wrapping packages face.

Maintained by Hadley Wickham. Last updated 4 days ago.

http

23.8 match 246 stars 17.64 score 1.9k scripts 1.1k dependents

ropensci

vcr:Record 'HTTP' Calls to Disk

Record test suite 'HTTP' requests and replays them during future runs. A port of the Ruby gem of the same name (<https://github.com/vcr/vcr/>). Works by hooking into the 'webmockr' R package for matching 'HTTP' requests by various rules ('HTTP' method, 'URL', query parameters, headers, body, etc.), and then caching real 'HTTP' responses on disk in 'cassettes'. Subsequent 'HTTP' requests matching any previous requests in the same 'cassette' use a cached 'HTTP' response.

Maintained by Scott Chamberlain. Last updated 27 days ago.

http https api web-services curl mock mocking http-mocking testing testing-tools tdd unit-testing vcr

35.3 match 77 stars 10.06 score 165 scripts

ropensci

webmockr:Stubbing and Setting Expectations on 'HTTP' Requests

Stubbing and setting expectations on 'HTTP' requests. Includes tools for stubbing 'HTTP' requests, including expected request conditions and response conditions. Match on 'HTTP' method, query parameters, request body, headers and more. Can be used for unit tests or outside of a testing context.

Maintained by Scott Chamberlain. Last updated 2 months ago.

http https api web-services curl mock mocking fakeweb http-mocking testing testing-tools tdd http-mock

39.2 match 49 stars 8.29 score 141 scripts 1 dependents

nealrichardson

httptest:A Test Environment for HTTP Requests

Testing and documenting code that communicates with remote servers can be painful. Dealing with authentication, server state, and other complications can make testing seem too costly to bother with. But it doesn't need to be that hard. This package enables one to test all of the logic on the R sides of the API in your package without requiring access to the remote service. Importantly, it provides three contexts that mock the network connection in different ways, as well as testing functions to assert that HTTP requests were---or were not---made. It also allows one to safely record real API responses to use as test fixtures. The ability to save responses and load them offline also enables one to write vignettes and other dynamic documents that can be distributed without access to a live server.

Maintained by Neal Richardson. Last updated 1 years ago.

http mock test-framework

30.4 match 81 stars 9.46 score 276 scripts 1 dependents

cran

RCurl:General Network (HTTP/FTP/...) Client Interface for R

A wrapper for 'libcurl' <https://curl.se/libcurl/> Provides functions to allow one to compose general HTTP requests and provides convenient functions to fetch URIs, get & post forms, etc. and process the results returned by the Web server. This provides a great deal of control over the HTTP/FTP/... connection and the form of the request while providing a higher-level interface than is available just using R socket connections. Additionally, the underlying implementation is robust and extensive, supporting FTP/FTPS/TFTP (uploads and downloads), SSL/HTTPS, telnet, dict, ldap, and also supports cookies, redirects, authentication, etc.

Maintained by CRAN Team. Last updated 10 days ago.

curl

24.3 match 2 stars 8.50 score 1.0k dependents

nealrichardson

httptest2:Test Helpers for 'httr2'

Testing and documenting code that communicates with remote servers can be painful. This package helps with writing tests for packages that use 'httr2'. It enables testing all of the logic on the R sides of the API without requiring access to the remote service, and it also allows recording real API responses to use as test fixtures. The ability to save responses and load them offline also enables writing vignettes and other dynamic documents that can be distributed without access to a live server.

Maintained by Neal Richardson. Last updated 9 months ago.

http mock testing

21.2 match 33 stars 9.37 score 95 scripts 1 dependents

rstudio

httpuv:HTTP and WebSocket Server Library

Provides low-level socket and protocol support for handling HTTP and WebSocket requests directly from within R. It is primarily intended as a building block for other packages, rather than making it particularly easy to create complete web applications using httpuv alone. httpuv is built on top of the libuv and http-parser C libraries, both of which were developed by Joyent, Inc. (See LICENSE file for libuv and http-parser license information.)

Maintained by Winston Chang. Last updated 13 days ago.

libuv1 cpp

12.3 match 236 stars 15.42 score 708 scripts 2.1k dependents

thomasp85

reqres:Powerful Classes for HTTP Requests and Responses

In order to facilitate parsing of http requests and creating appropriate responses this package provides two classes to handle a lot of the housekeeping involved in working with http exchanges. The infrastructure builds upon the 'rook' specification and is thus well suited to be combined with 'httpuv' based web servers.

Maintained by Thomas Lin Pedersen. Last updated 17 hours ago.

http http-server request response

29.8 match 38 stars 6.18 score 19 scripts 2 dependents

sckott

fauxpas:HTTP Error Helpers

HTTP error helpers. Methods included for general purpose HTTP error handling, as well as individual methods for every HTTP status code, both via status code numbers as well as their descriptive names. Supports ability to adjust behavior to stop, message or warning. Includes ability to use custom whisker template to have any configuration of status code, short description, and verbose message. Currently supports integration with 'crul', 'curl', and 'httr'.

Maintained by Scott Chamberlain. Last updated 1 years ago.

http https api web-services curl errors error error-handling

21.0 match 14 stars 7.97 score 36 scripts 24 dependents

rexyai

RestRserve:A Framework for Building HTTP API

Allows to easily create high-performance full featured HTTP APIs from R functions. Provides high-level classes such as 'Request', 'Response', 'Application', 'Middleware' in order to streamline server side application development. Out of the box allows to serve requests using 'Rserve' package, but flexible enough to integrate with other HTTP servers such as 'httpuv'.

Maintained by Dmitry Selivanov. Last updated 14 days ago.

http-server openapi rest-api swagger-ui cpp

15.2 match 283 stars 9.74 score 95 scripts 1 dependents

sckott

httpcode:'HTTP' Status Code Helper

Find and explain the meaning of 'HTTP' status codes. Functions included for searching for codes by full or partial number, by message, and get appropriate dog and cat images for many status codes.

Maintained by Scott Chamberlain. Last updated 2 years ago.

http

18.2 match 9 stars 7.75 score 10 scripts 170 dependents

yihui

servr:A Simple HTTP Server to Serve Static Files or Dynamic Documents

Start an HTTP server in R to serve static files, or dynamic documents that can be converted to HTML files (e.g., R Markdown) under a given directory.

Maintained by Yihui Xie. Last updated 3 months ago.

http-server web-server websocket

10.8 match 283 stars 12.51 score 190 scripts 94 dependents

sckott

request:High Level 'HTTP' Client

High level and easy 'HTTP' client for 'R' that makes assumptions that should work in most cases. Provides functions for building 'HTTP' queries, including query parameters, body requests, headers, authentication, and more.

Maintained by Scott Chamberlain. Last updated 5 years ago.

api curl curl-library http

20.2 match 36 stars 6.16 score 812 scripts

ropensci

robotstxt:A 'robots.txt' Parser and 'Webbot'/'Spider'/'Crawler' Permissions Checker

Provides functions to download and parse 'robots.txt' files. Ultimately the package makes it easy to check if bots (spiders, crawler, scrapers, ...) are allowed to access specific resources on a domain.

Maintained by Jordan Bradford. Last updated 5 months ago.

crawler peer-reviewed robotstxt scraper spider webscraping

11.0 match 68 stars 10.43 score 414 scripts 7 dependents

nealrichardson

httpcache:Query Cache for HTTP Clients

In order to improve performance for HTTP API clients, 'httpcache' provides simple tools for caching and invalidating cache. It includes the HTTP verb functions GET, PUT, PATCH, POST, and DELETE, which are drop-in replacements for those in the 'httr' package. These functions are cache-aware and provide default settings for cache invalidation suitable for RESTful APIs; the package also enables custom cache-management strategies. Finally, 'httpcache' includes a basic logging framework to facilitate the measurement of HTTP request time and cache performance.

Maintained by Neal Richardson. Last updated 2 years ago.

caching http-client logging

17.4 match 13 stars 6.37 score 12 scripts 8 dependents

ropensci

elastic:General Purpose Interface to 'Elasticsearch'

Connect to 'Elasticsearch', a 'NoSQL' database built on the 'Java' Virtual Machine. Interacts with the 'Elasticsearch' 'HTTP' API (<https://www.elastic.co/elasticsearch/>), including functions for setting connection details to 'Elasticsearch' instances, loading bulk data, searching for documents with both 'HTTP' query variables and 'JSON' based body requests. In addition, 'elastic' provides functions for interacting with API's for 'indices', documents, nodes, clusters, an interface to the cat API, and more.

Maintained by Scott Chamberlain. Last updated 2 years ago.

database elasticsearch http api search nosql java json documents data-science database-wrapper etl

11.8 match 247 stars 8.98 score 151 scripts 1 dependents

ropensci

gistr:Work with 'GitHub' 'Gists'

Work with 'GitHub' 'gists' from 'R' (e.g., <https://en.wikipedia.org/wiki/GitHub#Gist>, <https://docs.github.com/en/github/writing-on-github/creating-gists/>). A 'gist' is simply one or more files with code/text/images/etc. This package allows the user to create new 'gists', update 'gists' with new files, rename files, delete files, get and delete 'gists', star and 'un-star' 'gists', fork 'gists', open a 'gist' in your default browser, get embed code for a 'gist', list 'gist' 'commits', and get rate limit information when 'authenticated'. Some requests require authentication and some do not. 'Gists' website: <https://gist.github.com/>.

Maintained by Scott Chamberlain. Last updated 2 years ago.

http https api web-services github github api gist gists code script snippet api-wrapper github-api github-gist

12.7 match 104 stars 8.28 score 42 scripts 2 dependents

sckott

httping:'Ping' 'URLs' to Time 'Requests'

A suite of functions to ping 'URLs' and to time 'HTTP' 'requests'. Designed to work with 'httr'.

Maintained by Scott Chamberlain. Last updated 2 years ago.

http http-client http-requests httping

28.3 match 10 stars 3.70 score 2 scripts

nx10

httpgd:A 'HTTP' Server Graphics Device

A graphics device for R that is accessible via network protocols. This package was created to make it easier to embed live R graphics in integrated development environments and other applications. The included 'HTML/JavaScript' client (plot viewer) aims to provide a better overall user experience when dealing with R graphics. The device asynchronously serves graphics via 'HTTP' and 'WebSockets'.

Maintained by Florian Rupprecht. Last updated 16 days ago.

cpp

9.2 match 428 stars 11.01 score 280 scripts 1 dependents

bstatcomp

bayes4psy:User Friendly Bayesian Data Analysis for Psychology

Contains several Bayesian models for data analysis of psychological tests. A user friendly interface for these models should enable students and researchers to perform professional level Bayesian data analysis without advanced knowledge in programming and Bayesian statistics. This package is based on the Stan platform (Carpenter et el. 2017 <doi:10.18637/jss.v076.i01>).

Maintained by Jure Demšar. Last updated 2 years ago.

cpp

15.5 match 14 stars 6.44 score 33 scripts

r-lib

webfakes:Fake Web Apps for HTTP Testing

Create a web app that makes it easier to test web clients without using the internet. It includes a web app framework with path matching, parameters and templates. Can parse various 'HTTP' request bodies. Can send 'JSON' data or files from the disk. Includes a web app that implements the 'httpbin.org' web service.

Maintained by Gábor Csárdi. Last updated 7 days ago.

12.6 match 62 stars 7.42 score 15 scripts 1 dependents

ropensci

ghql:General Purpose 'GraphQL' Client

A 'GraphQL' client, with an R6 interface for initializing a connection to a 'GraphQL' instance, and methods for constructing queries, including fragments and parameterized queries. Queries are checked with the 'libgraphqlparser' C++ parser via the 'graphql' package.

Maintained by Mark Padgham. Last updated 2 years ago.

http api web-services curl data graphql graphql-api graphql-client

11.0 match 148 stars 8.12 score 111 scripts 5 dependents

cmmr

webqueue:Multicore HTTP Server

Distributes HTTP requests among a pool of background R processes. Supports timeouts and interrupts of requests to ensure that CPU cores are utilized effectively.

Maintained by Daniel P. Smith. Last updated 20 days ago.

15.9 match 2 stars 5.15 score

bioc

atSNP:Affinity test for identifying regulatory SNPs

atSNP performs affinity tests of motif matches with the SNP or the reference genomes and SNP-led changes in motif matches.

Maintained by Sunyoung Shin. Last updated 5 months ago.

software chipseq genomeannotation motifannotation visualization cpp

12.8 match 1 stars 5.73 score 36 scripts

rstudio

rsconnect:Deploy Docs, Apps, and APIs to 'Posit Connect', 'shinyapps.io', and 'RPubs'

Programmatic deployment interface for 'RPubs', 'shinyapps.io', and 'Posit Connect'. Supported content types include R Markdown documents, Shiny applications, Plumber APIs, plots, and static web content.

Maintained by Aron Atkins. Last updated 1 months ago.

4.6 match 141 stars 14.88 score 3.1k scripts 6 dependents

thomasp85

fiery:A Lightweight and Flexible Web Framework

A very flexible framework for building server side logic in R. The framework is unopinionated when it comes to how HTTP requests and WebSocket messages are handled and supports all levels of app complexity; from serving static content to full-blown dynamic web-apps. Fiery does not hold your hand as much as e.g. the shiny package does, but instead sets you free to create your web app the way you want.

Maintained by Thomas Lin Pedersen. Last updated 4 days ago.

http-server httpuv webserver websocket-server

8.0 match 248 stars 8.37 score 34 scripts

s-u

Rserve:Versatile R Server

Rserve is a versatile, scalable server enabling the efficient use of R from other applications through variety of protocols including QAP, WebSockets, HTTP and HTTPS. It acts as a server (TCP/IP or local sockets) which allows binary requests to be sent to R. Every connection has a separate workspace and working directory. Client-side implementations are available for many popular languages allowing applications to use facilities of R without the need of linking to the R binary. Rserve supports remote connections, user authentication and file transfer. A simple R client is included in this package as well. It also supports OCAP mode for secure remote procedure calls, including support for full event loop, asynchronous results/graphics and console I/O.

Maintained by Simon Urbanek. Last updated 3 months ago.

openssl libxcrypt

6.0 match 287 stars 11.10 score 420 scripts 2 dependents

thomasp85

routr:A Simple Router for HTTP and WebSocket Requests

In order to make sure that web request ends up in the correct handler function a router is often used. 'routr' is a package implementing a simple but powerful routing functionality for R based servers. It is a fully functional 'fiery' plugin, but can also be used with other 'httpuv' based servers.

Maintained by Thomas Lin Pedersen. Last updated 4 days ago.

http-router middleware router webtechnology

10.5 match 55 stars 6.28 score 25 scripts

sciviews

svHttp:'SciViews' - HTTP Server

A simple HTTP server allows to connect GUI clients to R.

Maintained by Philippe Grosjean. Last updated 3 years ago.

sciviews server

17.8 match 1 stars 3.70 score 7 scripts

melff

RKernel:Yet another R kernel for Jupyter

Provides a kernel for Jupyter.

Maintained by Martin Elff. Last updated 1 days ago.

jupyter jupyter-kernel jupyter-kernels jupyter-notebook

12.4 match 38 stars 4.64 score

tomasfryda

h2o:R Interface for the 'H2O' Scalable Machine Learning Platform

R interface for 'H2O', the scalable open source machine learning platform that offers parallelized implementations of many supervised and unsupervised machine learning algorithms such as Generalized Linear Models (GLM), Gradient Boosting Machines (including XGBoost), Random Forests, Deep Neural Networks (Deep Learning), Stacked Ensembles, Naive Bayes, Generalized Additive Models (GAM), ANOVA GLM, Cox Proportional Hazards, K-Means, PCA, ModelSelection, Word2Vec, as well as a fully automatic machine learning algorithm (H2O AutoML).

Maintained by Tomas Fryda. Last updated 1 years ago.

6.7 match 3 stars 8.20 score 7.8k scripts 11 dependents

wch

downloader:Download Files over HTTP and HTTPS

Provides a wrapper for the download.file function, making it possible to download files over HTTPS on Windows, Mac OS X, and other Unix-like platforms. The 'RCurl' package provides this functionality (and much more) but can be difficult to install because it must be compiled with external dependencies. This package has no external dependencies, so it is much easier to install.

Maintained by Winston Chang. Last updated 5 days ago.

4.9 match 33 stars 11.12 score 2.9k scripts 106 dependents

demsarjure

autohrf:Automated Generation of Data-Informed GLM Models in Task-Based fMRI Data Analysis

Analysis of task-related functional magnetic resonance imaging (fMRI) activity at the level of individual participants is commonly based on general linear modelling (GLM) that allows us to estimate to what extent the blood oxygenation level dependent (BOLD) signal can be explained by task response predictors specified in the GLM model. The predictors are constructed by convolving the hypothesised timecourse of neural activity with an assumed hemodynamic response function (HRF). To get valid and precise estimates of task response, it is important to construct a model of neural activity that best matches actual neuronal activity. The construction of models is most often driven by predefined assumptions on the components of brain activity and their duration based on the task design and specific aims of the study. However, our assumptions about the onset and duration of component processes might be wrong and can also differ across brain regions. This can result in inappropriate or suboptimal models, bad fitting of the model to the actual data and invalid estimations of brain activity. Here we present an approach in which theoretically driven models of task response are used to define constraints based on which the final model is derived computationally using the actual data. Specifically, we developed 'autohrf' — a package for the 'R' programming language that allows for data-driven estimation of HRF models. The package uses genetic algorithms to efficiently search for models that fit the underlying data well. The package uses automated parameter search to find the onset and duration of task predictors which result in the highest fitness of the resulting GLM based on the fMRI signal under predefined restrictions. We evaluate the usefulness of the 'autohrf' package on publicly available datasets of task-related fMRI activity. Our results suggest that by using 'autohrf' users can find better task related brain activity models in a quick and efficient manner.

Maintained by Jure Demšar. Last updated 1 years ago.

10.8 match 2 stars 4.72 score 13 scripts

bioc

igvShiny:igvShiny: a wrapper of Integrative Genomics Viewer (IGV - an interactive tool for visualization and exploration integrated genomic data)

This package is a wrapper of Integrative Genomics Viewer (IGV). It comprises an htmlwidget version of IGV. It can be used as a module in Shiny apps.

Maintained by Arkadiusz Gladki. Last updated 5 months ago.

software shinyapps sequencing coverage

6.8 match 37 stars 7.40 score 120 scripts

ropengov

dkstat:API connection to the StatBank from Statistics Denmark

This package provides a few simple functions that can be used to query the StatBank from Statistics Denmark.

Maintained by Aleksander Bang-Larsen. Last updated 21 days ago.

ropengov

7.6 match 34 stars 6.38 score 39 scripts

jeroen

curl:A Modern and Flexible Web Client for R

Bindings to 'libcurl' <https://curl.se/libcurl/> for performing fully configurable HTTP/FTP requests where responses can be processed in memory, on disk, or streaming via the callback or connection interfaces. Some knowledge of 'libcurl' is recommended; for a more-user-friendly web client see the 'httr2' package which builds on this package with http specific tools and logic.

Maintained by Jeroen Ooms. Last updated 8 days ago.

curl

2.1 match 222 stars 20.02 score 4.0k scripts 5.9k dependents

tiledb-inc

tiledbcloud:TileDB Cloud Platform R Client Package

The TileDB Cloud Platform API Client Package offers access to the TileDB Cloud service.

Maintained by John Kerl. Last updated 9 months ago.

7.2 match 1 stars 5.22 score 92 scripts

alexander-pastukhov

BiDimRegression:Calculates the Bidimensional Regression Between Two 2D Configurations

Calculates the bidimensional regression between two 2D configurations following the approach by Tobler (1965).

Maintained by Alexander Pastukhov. Last updated 3 years ago.

9.3 match 4.00 score 20 scripts

r-lib

log4r:A Fast and Lightweight Logging System for R, Based on 'log4j'

The log4r package is meant to provide a fast, lightweight, object-oriented approach to logging in R based on the widely-emulated 'log4j' system and etymology.

Maintained by Aaron Jacobs. Last updated 5 months ago.

logging

3.3 match 95 stars 10.81 score 217 scripts 16 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 9 hours ago.

dynamic-documents knitr literate-programming rmarkdown sweave

1.5 match 2.4k stars 23.64 score 116k scripts 4.2k dependents

posit-dev

connectapi:Utilities for Interacting with the 'Posit Connect' Server API

Provides a helpful 'R6' class and methods for interacting with the 'Posit Connect' Server API along with some meaningful utility functions for regular tasks. API documentation varies by 'Posit Connect' installation and version, but the latest documentation is also hosted publicly at <https://docs.posit.co/connect/api/>.

Maintained by Toph Allen. Last updated 8 hours ago.

api-client rstudio-connect

3.3 match 47 stars 10.48 score 252 scripts 1 dependents

dataoneorg

dataone:R Interface to the DataONE REST API

Provides read and write access to data and metadata from the DataONE network <https://www.dataone.org> of data repositories. Each DataONE repository implements a consistent repository application programming interface. Users call methods in R to access these remote repository functions, such as methods to query the metadata catalog, get access to metadata for particular data packages, and read the data objects from the data repository. Users can also insert and update data objects on repositories that support these methods.

Maintained by Matthew B. Jones. Last updated 3 years ago.

3.5 match 36 stars 9.93 score 472 scripts 3 dependents

parklab

Nozzle.R1:Nozzle Reports

The Nozzle package provides an API to generate HTML reports with dynamic user interface elements based on JavaScript and CSS (Cascading Style Sheets). Nozzle was designed to facilitate summarization and rapid browsing of complex results in data analysis pipelines where multiple analyses are performed frequently on big data sets. The package can be applied to any project where user-friendly reports need to be created.

Maintained by Nils Gehlenborg. Last updated 10 years ago.

gehlenborglab html-report reproducible-research

6.5 match 68 stars 5.31 score 10 scripts 2 dependents

dietrichson

ProPublicaR:Access Functions for ProPublica's APIs

Provides wrapper functions to access the ProPublica's Congress and Campaign Finance APIs. The Congress API provides near real-time access to legislative data from the House of Representatives, the Senate and the Library of Congress. The Campaign Finance API provides data from United States Federal Election Commission filings and other sources. The API covers summary information for candidates and committees, as well as certain types of itemized data. For more information about these APIs go to: <https://www.propublica.org/datastore/apis>.

Maintained by Aleksander Dietrichson. Last updated 2 years ago.

7.8 match 12 stars 4.38 score 1 scripts

devopifex

communicate:Communicate Between 'Shiny' Client and Server

What the package does (one paragraph).

Maintained by John Coene. Last updated 10 months ago.

client-server http javascript

11.0 match 23 stars 3.06 score 5 scripts

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

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

jmotif

jmotif:Time Series Analysis Toolkit Based on Symbolic Aggregate Discretization, i.e. SAX

Implements time series z-normalization, SAX, HOT-SAX, VSM, SAX-VSM, RePair, and RRA algorithms facilitating time series motif (i.e., recurrent pattern), discord (i.e., anomaly), and characteristic pattern discovery along with interpretable time series classification.

Maintained by Pavel Senin. Last updated 3 years ago.

anomalydiscovery discord discretization kdd sax sax-vsm timeseries cpp

6.5 match 55 stars 5.12 score 48 scripts

rstudio

reticulate:Interface to 'Python'

Interface to 'Python' modules, classes, and functions. When calling into 'Python', R data types are automatically converted to their equivalent 'Python' types. When values are returned from 'Python' to R they are converted back to R types. Compatible with all versions of 'Python' >= 2.7.

Maintained by Tomasz Kalinowski. Last updated 6 days ago.

cpp

1.5 match 1.7k stars 21.02 score 18k scripts 434 dependents

talgalili

installr:Using R to Install Stuff on Windows OS (Such As: R, 'Rtools', 'RStudio', 'Git', and More!)

R is great for installing software. Through the 'installr' package you can automate the updating of R (on Windows, using updateR()) and install new software. Software installation is initiated through a GUI (just run installr()), or through functions such as: install.Rtools(), install.pandoc(), install.git(), and many more. The updateR() command performs the following: finding the latest R version, downloading it, running the installer, deleting the installation file, copy and updating old packages to the new R installation.

Maintained by Tal Galili. Last updated 1 years ago.

3.1 match 275 stars 10.29 score 1.2k scripts

shikokuchuo

nanonext:NNG (Nanomsg Next Gen) Lightweight Messaging Library

R binding for NNG (Nanomsg Next Gen), a successor to ZeroMQ. NNG is a socket library for reliable, high-performance messaging over in-process, IPC, TCP, WebSocket and secure TLS transports. Implements 'Scalability Protocols', a standard for common communications patterns including publish/subscribe, request/reply and service discovery. As its own threaded concurrency framework, provides a toolkit for asynchronous programming and distributed computing. Intuitive 'aio' objects resolve automatically when asynchronous operations complete, and synchronisation primitives allow R to wait upon events signalled by concurrent threads.

Maintained by Charlie Gao. Last updated 10 days ago.

concurrency https ipc-message messaging-library nng rpc socket-communication synchronization-primitives tcp-protocol websocket mbedtls

3.1 match 61 stars 9.80 score 28 scripts 9 dependents

pedropark99

figma:Web Client/Wrapper to the 'Figma API'

An easy-to-use web client/wrapper for the 'Figma API' <https://www.figma.com/developers/api>. It allows you to bring all data from a 'Figma' file to your 'R' session. This includes the data of all objects that you have drawn in this file, and their respective canvas/page metadata.

Maintained by Pedro Faria. Last updated 2 years ago.

api api-rest figma

5.7 match 4 stars 5.30 score 33 scripts

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

calderonsamuel

SSEparser:Parse Server-Sent Events

Functionality to parse server-sent events with a high-level interface that can be extended for custom applications.

Maintained by Samuel Calderon. Last updated 1 years ago.

http-requests parser stream

7.5 match 1 stars 3.65 score 3 scripts 3 dependents

r-lib

gargle:Utilities for Working with Google APIs

Provides utilities for working with Google APIs <https://developers.google.com/apis-explorer>. This includes functions and classes for handling common credential types and for preparing, executing, and processing HTTP requests.

Maintained by Jennifer Bryan. Last updated 2 years ago.

authentication google

1.8 match 113 stars 14.90 score 266 scripts 192 dependents

analythium

tryr:Client/Server Error Handling for HTTP API Frameworks

Differentiate client errors (4xx) from server errors (5xx) for the 'plumber' and 'RestRserve' HTTP API frameworks. The package also includes a built-in logging mechanism to standard output (STDOUT) or standard error (STDERR) depending on the log level.

Maintained by Peter Solymos. Last updated 2 months ago.

7.1 match 3 stars 3.65 score 2 scripts

talgalili

dendextend:Extending 'dendrogram' Functionality in R

Offers a set of functions for extending 'dendrogram' objects in R, letting you visualize and compare trees of 'hierarchical clusterings'. You can (1) Adjust a tree's graphical parameters - the color, size, type, etc of its branches, nodes and labels. (2) Visually and statistically compare different 'dendrograms' to one another.

Maintained by Tal Galili. Last updated 2 months ago.

1.5 match 154 stars 17.13 score 6.0k scripts 165 dependents

ropensci

taxize:Taxonomic Information from Around the Web

Interacts with a suite of web application programming interfaces (API) for taxonomic tasks, such as getting database specific taxonomic identifiers, verifying species names, getting taxonomic hierarchies, fetching downstream and upstream taxonomic names, getting taxonomic synonyms, converting scientific to common names and vice versa, and more. Some of the services supported include 'NCBI E-utilities' (<https://www.ncbi.nlm.nih.gov/books/NBK25501/>), 'Encyclopedia of Life' (<https://eol.org/docs/what-is-eol/data-services>), 'Global Biodiversity Information Facility' (<https://techdocs.gbif.org/en/openapi/>), and many more. Links to the API documentation for other supported services are available in the documentation for their respective functions in this package.

Maintained by Zachary Foster. Last updated 27 days ago.

taxonomy biology nomenclature json api web api-client identifiers species names api-wrapper biodiversity darwincore data taxize

1.9 match 274 stars 13.63 score 1.6k scripts 23 dependents

bioc

DOSE:Disease Ontology Semantic and Enrichment analysis

This package implements five methods proposed by Resnik, Schlicker, Jiang, Lin and Wang respectively for measuring semantic similarities among DO terms and gene products. Enrichment analyses including hypergeometric model and gene set enrichment analysis are also implemented for discovering disease associations of high-throughput biological data.

Maintained by Guangchuang Yu. Last updated 5 months ago.

annotation visualization multiplecomparison genesetenrichment pathways software disease-ontology enrichment-analysis semantic-similarity

1.7 match 119 stars 14.97 score 2.0k scripts 61 dependents

cloudyr

aws.s3:'AWS S3' Client Package

A simple client package for the Amazon Web Services ('AWS') Simple Storage Service ('S3') 'REST' 'API' <https://aws.amazon.com/s3/>.

Maintained by Simon Urbanek. Last updated 5 years ago.

amazon aws aws-s3 cloudyr s3 s3-storage

2.0 match 383 stars 12.47 score 1.4k scripts 17 dependents

polar-fhir

fhircrackr:Handling HL7 FHIR® Resources in R

Useful tools for conveniently downloading FHIR resources in xml format and converting them to R data.frames. The package uses FHIR-search to download bundles from a FHIR server, provides functions to save and read xml-files containing such bundles and allows flattening the bundles to data.frames using XPath expressions. FHIR® is the registered trademark of HL7 and is used with the permission of HL7. Use of the FHIR trademark does not constitute endorsement of this product by HL7.

Maintained by Julia Palm. Last updated 26 days ago.

fhir fhir-client

3.1 match 33 stars 7.63 score 46 scripts

patzaw

ClickHouseHTTP:A Simple HTTP Database Interface to 'ClickHouse'

'ClickHouse' (<https://clickhouse.com/>) is an open-source, high performance columnar OLAP (online analytical processing of queries) database management system for real-time analytics using SQL. This 'DBI' backend relies on the 'ClickHouse' HTTP interface and support HTTPS protocol.

Maintained by Patrice Godard. Last updated 7 months ago.

5.2 match 16 stars 4.46 score 12 scripts 1 dependents

cnathe

Rlabkey:Data Exchange Between R and 'LabKey' Server

The 'LabKey' client library for R makes it easy for R users to load live data from a 'LabKey' Server, <https://www.labkey.com/>, into the R environment for analysis, provided users have permissions to read the data. It also enables R users to insert, update, and delete records stored on a 'LabKey' Server, provided they have appropriate permissions to do so.

Maintained by Cory Nathe. Last updated 18 days ago.

cpp

5.1 match 4.25 score 388 scripts 1 dependents

rstudio

dygraphs:Interface to 'Dygraphs' Interactive Time Series Charting Library

An R interface to the 'dygraphs' JavaScript charting library (a copy of which is included in the package). Provides rich facilities for charting time-series data in R, including highly configurable series- and axis-display and interactive features like zoom/pan and series/point highlighting.

Maintained by Petr Shevtsov. Last updated 2 years ago.

1.6 match 365 stars 13.48 score 3.6k scripts 65 dependents

idigbio

ridigbio:Interface to the iDigBio Data API

An interface to iDigBio's search API that allows downloading specimen records. Searches are returned as a data.frame. Other functions such as the metadata end points return lists of information. iDigBio is a US project focused on digitizing and serving museum specimen collections on the web. See <https://www.idigbio.org> for information on iDigBio.

Maintained by Jesse Bennett. Last updated 20 days ago.

2.0 match 16 stars 10.23 score 63 scripts 7 dependents

evanbiederstedt

Rook:HTTP Web Server for R

An HTTP web server for R with a documented API to interface between R and the server. The documentation contains the Rook specification and details for building and running Rook applications. To get started, be sure and read the 'Rook' help file first.

Maintained by Evan Biederstedt. Last updated 2 years ago.

3.6 match 1 stars 5.58 score 109 scripts 3 dependents

ixpantia

tower:Easy Middle Ware Library for 'shiny'

The best way to implement middle ware for 'shiny' Applications. 'tower' is designed to make implementing behavior on top of 'shiny' easy with a layering model for incoming HTTP requests and server sessions. 'tower' is a very minimal package with little overhead, it is mainly meant for other package developers to implement new behavior.

Maintained by Andres Quintero. Last updated 6 months ago.

4.3 match 31 stars 4.67 score 5 scripts 1 dependents

jeroen

webutils:Utility Functions for Developing Web Applications

Parses http request data in application/json, multipart/form-data, or application/x-www-form-urlencoded format. Includes example of hosting and parsing html form data in R using either 'httpuv' or 'Rhttpd'.

Maintained by Jeroen Ooms. Last updated 6 months ago.

2.5 match 24 stars 7.65 score 5 scripts 24 dependents

jimhester

knitrBootstrap:'knitr' Bootstrap Framework

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

Maintained by Jim Hester. Last updated 1 years ago.

2.1 match 277 stars 9.04 score 123 scripts 1 dependents

crunch-io

crunch:Crunch.io Data Tools

The Crunch.io service <https://crunch.io/> provides a cloud-based data store and analytic engine, as well as an intuitive web interface. Using this package, analysts can interact with and manipulate Crunch datasets from within R. Importantly, this allows technical researchers to collaborate naturally with team members, managers, and clients who prefer a point-and-click interface.

Maintained by Greg Freedman Ellis. Last updated 10 days ago.

1.8 match 9 stars 10.47 score 200 scripts 2 dependents

jordavuc

educineq:Compute and Decompose Inequality in Education

Easily compute education inequality measures and the distribution of educational attainments for any group of countries, using the data set developed in Jorda, V. and Alonso, JM. (2017) <DOI:10.1016/j.worlddev.2016.10.005>. The package offers the possibility to compute not only the Gini index, but also generalized entropy measures for different values of the sensitivity parameter. In particular, the package includes functions to compute the mean log deviation, which is more sensitive to the bottom part of the distribution; the Theil’s entropy measure, equally sensitive to all parts of the distribution; and finally, the GE measure when the sensitivity parameter is set equal to 2, which gives more weight to differences in higher education. The decomposition of these measures in the components between-country and within-country inequality is also provided. Two graphical tools are also provided, to analyse the evolution of the distribution of educational attainments: The cumulative distribution function and the Lorenz curve.

Maintained by Vanesa Jorda. Last updated 8 years ago.

18.7 match 1.00 score 7 scripts

rstudio

r2d3:Interface to 'D3' Visualizations

Suite of tools for using 'D3', a library for producing dynamic, interactive data visualizations. Supports translating objects into 'D3' friendly data structures, rendering 'D3' scripts, publishing 'D3' visualizations, incorporating 'D3' in R Markdown, creating interactive 'D3' applications with Shiny, and distributing 'D3' based 'htmlwidgets' in R packages.

Maintained by Nick Strayer. Last updated 3 years ago.

d3 r2d3 visualization

1.6 match 519 stars 11.88 score 498 scripts 10 dependents

bioc

epiNEM:epiNEM

epiNEM is an extension of the original Nested Effects Models (NEM). EpiNEM is able to take into account double knockouts and infer more complex network signalling pathways. It is tailored towards large scale double knock-out screens.

Maintained by Martin Pirkl. Last updated 5 months ago.

pathways systemsbiology networkinference network

3.2 match 1 stars 5.83 score 1 scripts 3 dependents

rstudio

tfruns:Training Run Tools for 'TensorFlow'

Create and manage unique directories for each 'TensorFlow' training run. Provides a unique, time stamped directory for each run along with functions to retrieve the directory of the latest run or latest several runs.

Maintained by Tomasz Kalinowski. Last updated 12 months ago.

1.5 match 34 stars 11.80 score 325 scripts 77 dependents

colearendt

tidyjson:Tidy Complex 'JSON'

Turn complex 'JSON' data into tidy data frames.

Maintained by Cole Arendt. Last updated 2 years ago.

1.7 match 192 stars 10.64 score 522 scripts 7 dependents

cloudyr

googleComputeEngineR:R Interface with Google Compute Engine

Interact with the 'Google Compute Engine' API in R. Lets you create, start and stop instances in the 'Google Cloud'. Support for preconfigured instances, with templates for common R needs.

Maintained by Mark Edmondson. Last updated 16 days ago.

api cloud-computing cloudyr google-cloud googleauthr launching-virtual-machines

1.8 match 152 stars 9.73 score 235 scripts

wjawaid

enrichR:Provides an R Interface to 'Enrichr'

Provides an R interface to all 'Enrichr' databases. 'Enrichr' is a web-based tool for analysing gene sets and returns any enrichment of common annotated biological features. Quoting from their website 'Enrichment analysis is a computational method for inferring knowledge about an input gene set by comparing it to annotated gene sets representing prior biological knowledge.' See <https://maayanlab.cloud/Enrichr/> for further details.

Maintained by Wajid Jawaid. Last updated 2 months ago.

1.8 match 90 stars 9.96 score 7 dependents

jgx65

hierfstat:Estimation and Tests of Hierarchical F-Statistics

Estimates hierarchical F-statistics from haploid or diploid genetic data with any numbers of levels in the hierarchy, following the algorithm of Yang (Evolution(1998), 52:950). Tests via randomisations the significance of each F and variance components, using the likelihood-ratio statistics G (Goudet et al. (1996) <https://academic.oup.com/genetics/article/144/4/1933/6017091>). Estimates genetic diversity statistics for haploid and diploid genetic datasets in various formats, including inbreeding and coancestry coefficients, and population specific F-statistics following Weir and Goudet (2017) <https://academic.oup.com/genetics/article/206/4/2085/6072590>.

Maintained by Jerome Goudet. Last updated 4 months ago.

devtools fstatistics gwas hierfstat kinship population-genetics population-genomics quantitative-genetics simulations

1.6 match 25 stars 11.06 score 560 scripts 5 dependents

timelyportfolio

listviewer:'htmlwidget' for Interactive Views of R Lists

R lists, especially nested lists, can be very difficult to visualize or represent. Sometimes 'str()' is not enough, so this suite of htmlwidgets is designed to help see, understand, and maybe even modify your R lists. The function 'reactjson()' requires a package 'reactR' that can be installed from CRAN or <https://github.com/timelyportfolio/reactR>.

Maintained by Kent Russell. Last updated 2 years ago.

1.5 match 178 stars 10.37 score 408 scripts 15 dependents

baddstats

polyclip:Polygon Clipping

R port of Angus Johnson's open source library 'Clipper'. Performs polygon clipping operations (intersection, union, set minus, set difference) for polygonal regions of arbitrary complexity, including holes. Computes offset polygons (spatial buffer zones, morphological dilations, Minkowski dilations) for polygonal regions and polygonal lines. Computes Minkowski Sum of general polygons. There is a function for removing self-intersections from polygon data.

Maintained by Adrian Baddeley. Last updated 8 months ago.

64-bit clipper computational-geometry minkowski-sum polygon-clipping-algorithm polygon-intersection polygon-offsetting polygon-union polygons cpp

1.5 match 19 stars 10.31 score 27 scripts 553 dependents

pbiecek

archivist:Tools for Storing, Restoring and Searching for R Objects

Data exploration and modelling is a process in which a lot of data artifacts are produced. Artifacts like: subsets, data aggregates, plots, statistical models, different versions of data sets and different versions of results. The more projects we work with the more artifacts are produced and the harder it is to manage these artifacts. Archivist helps to store and manage artifacts created in R. Archivist allows you to store selected artifacts as a binary files together with their metadata and relations. Archivist allows to share artifacts with others, either through shared folder or github. Archivist allows to look for already created artifacts by using it's class, name, date of the creation or other properties. Makes it easy to restore such artifacts. Archivist allows to check if new artifact is the exact copy that was produced some time ago. That might be useful either for testing or caching.

Maintained by Przemyslaw Biecek. Last updated 8 months ago.

1.8 match 74 stars 8.81 score 105 scripts 2 dependents

tconwell

webdeveloper:Functions for Web Development

Organizational framework for web development in R including functions to serve static and dynamic content via HTTP methods, includes the html5 package to create HTML pages, and offers other utility functions for common tasks related to web development.

Maintained by Timothy Conwell. Last updated 2 years ago.

5.9 match 1 stars 2.70 score 1 scripts

sahirbhatnagar

ggmix:Variable Selection in Linear Mixed Models for SNP Data

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

Maintained by Sahir Bhatnagar. Last updated 4 years ago.

2.9 match 10 stars 5.48 score 20 scripts

hakaiinstitute

hakaiApi:Authenticated HTTP Request Client for the 'Hakai' API

Initializes a class that obtains API credentials and provides a method to use those credentials to make GET requests to the 'Hakai' API server. Usage instructions are documented at <https://hakaiinstitute.github.io/hakai-api/>.

Maintained by Taylor Denouden. Last updated 5 months ago.

api api-client eims

2.9 match 5 stars 5.34 score 11 scripts

bioc

LOLA:Locus overlap analysis for enrichment of genomic ranges

Provides functions for testing overlap of sets of genomic regions with public and custom region set (genomic ranges) databases. This makes it possible to do automated enrichment analysis for genomic region sets, thus facilitating interpretation of functional genomics and epigenomics data.

Maintained by Nathan Sheffield. Last updated 5 months ago.

genesetenrichment generegulation genomeannotation systemsbiology functionalgenomics chipseq methylseq sequencing

1.6 match 76 stars 9.34 score 160 scripts

timelyportfolio

sunburstR:Sunburst 'Htmlwidget'

Make interactive 'd3.js' sequence sunburst diagrams in R with the convenience and infrastructure of an 'htmlwidget'.

Maintained by Kent Russell. Last updated 2 years ago.

chart d3 htmlwidgets interactive javascript visualization

1.5 match 210 stars 10.02 score 310 scripts 4 dependents

garthtarr

edgebundleR:Circle Plot with Bundled Edges

Generates interactive circle plots with the nodes around the circumference and linkages between the connected nodes using hierarchical edge bundling via the D3 JavaScript library. See <http://d3js.org/> for more information on D3.

Maintained by Garth Tarr. Last updated 2 years ago.

2.1 match 70 stars 7.24 score 55 scripts

atheriel

httpproblems:Report Errors in Web Applications with 'Problem Details' (RFC 7807)

Tools for emitting the 'Problem Details' structure defined in 'RFC' 7807 <https://tools.ietf.org/html/rfc7807> for reporting errors from 'HTTP' servers in a standard way.

Maintained by Aaron Jacobs. Last updated 4 years ago.

plumber-api rfc-7807 rfc7807

4.2 match 6 stars 3.48 score 6 scripts

azure

azuremlsdk:Interface to the 'Azure Machine Learning' 'SDK'

Interface to the 'Azure Machine Learning' Software Development Kit ('SDK'). Data scientists can use the 'SDK' to train, deploy, automate, and manage machine learning models on the 'Azure Machine Learning' service. To learn more about 'Azure Machine Learning' visit the website: <https://docs.microsoft.com/en-us/azure/machine-learning/service/overview-what-is-azure-ml>.

Maintained by Diondra Peck. Last updated 3 years ago.

amlcompute azure azure-machine-learning azureml dsi machine-learning rstudio sdk-r

1.6 match 105 stars 8.91 score 221 scripts

bergant

rapiclient:Dynamic OpenAPI/Swagger Client

Access services specified in OpenAPI (formerly Swagger) format. It is not a code generator. Client is generated dynamically as a list of R functions.

Maintained by Marcel Ramos. Last updated 6 months ago.

api openapi swagger

1.8 match 68 stars 8.07 score 32 scripts 13 dependents

jbgruber

atrrr:Wrapper for the 'AT' Protocol Behind 'Bluesky'

Wraps the 'AT' Protocol (Authenticated Transfer Protocol) behind 'Bluesky' <https://bsky.social>. Functions can be used for, among others, retrieving posts and followers from the network or posting content.

Maintained by Johannes B. Gruber. Last updated 21 days ago.

atproto bluesky

1.8 match 28 stars 8.07 score 38 scripts

agisga

grpSLOPE:Group Sorted L1 Penalized Estimation

Group SLOPE (Group Sorted L1 Penalized Estimation) is a penalized linear regression method that is used for adaptive selection of groups of significant predictors in a high-dimensional linear model. The Group SLOPE method can control the (group) false discovery rate at a user-specified level (i.e., control the expected proportion of irrelevant among all selected groups of predictors). For additional information about the implemented methods please see Brzyski, Gossmann, Su, Bogdan (2018) <doi:10.1080/01621459.2017.1411269>.

Maintained by Alexej Gossmann. Last updated 2 years ago.

cpp

2.9 match 4 stars 4.93 score 43 scripts

usdaforestservice

gdalraster:Bindings to the 'Geospatial Data Abstraction Library' Raster API

Interface to the Raster API of the 'Geospatial Data Abstraction Library' ('GDAL', <https://gdal.org>). Bindings are implemented in an exposed C++ class encapsulating a 'GDALDataset' and its raster band objects, along with several stand-alone functions. These support manual creation of uninitialized datasets, creation from existing raster as template, read/set dataset parameters, low level I/O, color tables, raster attribute tables, virtual raster (VRT), and 'gdalwarp' wrapper for reprojection and mosaicing. Includes 'GDAL' algorithms ('dem_proc()', 'polygonize()', 'rasterize()', etc.), and functions for coordinate transformation and spatial reference systems. Calling signatures resemble the native C, C++ and Python APIs provided by the 'GDAL' project. Includes raster 'calc()' to evaluate a given R expression on a layer or stack of layers, with pixel x/y available as variables in the expression; and raster 'combine()' to identify and count unique pixel combinations across multiple input layers, with optional output of the pixel-level combination IDs. Provides raster display using base 'graphics'. Bindings to a subset of the 'OGR' API are also included for managing vector data sources. Bindings to a subset of the Virtual Systems Interface ('VSI') are also included to support operations on 'GDAL' virtual file systems. These are general utility functions that abstract file system operations on URLs, cloud storage services, 'Zip'/'GZip'/'7z'/'RAR' archives, and in-memory files. 'gdalraster' may be useful in applications that need scalable, low-level I/O, or prefer a direct 'GDAL' API.

Maintained by Chris Toney. Last updated 1 hours ago.

gdal geospatial raster vector cpp

1.5 match 41 stars 9.50 score 32 scripts 3 dependents

reinhardfurrer

spam:SPArse Matrix

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

Maintained by Reinhard Furrer. Last updated 2 months ago.

fortran openblas cpp

1.5 match 1 stars 9.36 score 420 scripts 439 dependents

ropensci

redland:RDF Library Bindings in R

Provides methods to parse, query and serialize information stored in the Resource Description Framework (RDF). RDF is described at <https://www.w3.org/TR/rdf-primer/>. This package supports RDF by implementing an R interface to the Redland RDF C library, described at <https://librdf.org/docs/api/index.html>. In brief, RDF provides a structured graph consisting of Statements composed of Subject, Predicate, and Object Nodes.

Maintained by Matthew B. Jones. Last updated 1 years ago.

redland

1.8 match 16 stars 7.76 score 98 scripts 13 dependents

ropengov

geofi:Access Finnish Geospatial Data

Designed to simplify geospatial data access from the Statistics Finland Web Feature Service API <https://geo.stat.fi/geoserver/index.html>, the geofi package offers researchers and analysts a set of tools to obtain and harmonize administrative spatial data for a wide range of applications, from urban planning to environmental research. The package contains annually updated time series of municipality key datasets that can be used for data aggregation and language translations.

Maintained by Markus Kainu. Last updated 2 months ago.

ropengov ggplot2

1.7 match 20 stars 8.17 score 61 scripts

ropensci

MODIStsp:Find, Download and Process MODIS Land Products Data

Allows automating the creation of time series of rasters derived from MODIS satellite land products data. It performs several typical preprocessing steps such as download, mosaicking, reprojecting and resizing data acquired on a specified time period. All processing parameters can be set using a user-friendly GUI. Users can select which layers of the original MODIS HDF files they want to process, which additional quality indicators should be extracted from aggregated MODIS quality assurance layers and, in the case of surface reflectance products, which spectral indexes should be computed from the original reflectance bands. For each output layer, outputs are saved as single-band raster files corresponding to each available acquisition date. Virtual files allowing access to the entire time series as a single file are also created. Command-line execution exploiting a previously saved processing options file is also possible, allowing users to automatically update time series related to a MODIS product whenever a new image is available. For additional documentation refer to the following article: Busetto and Ranghetti (2016) <doi:10.1016/j.cageo.2016.08.020>.

Maintained by Luigi Ranghetti. Last updated 9 months ago.

gdal modis modis-data modis-land-products peer-reviewed preprocessing remote-sensing satellite-imagery time-series

1.7 match 156 stars 8.04 score 86 scripts 1 dependents

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 4 days ago.

brain mri mrs mrshub spectroscopy fortran

1.6 match 25 stars 8.52 score 81 scripts

bioc

rcellminer:rcellminer: Molecular Profiles, Drug Response, and Chemical Structures for the NCI-60 Cell Lines

The NCI-60 cancer cell line panel has been used over the course of several decades as an anti-cancer drug screen. This panel was developed as part of the Developmental Therapeutics Program (DTP, http://dtp.nci.nih.gov/) of the U.S. National Cancer Institute (NCI). Thousands of compounds have been tested on the NCI-60, which have been extensively characterized by many platforms for gene and protein expression, copy number, mutation, and others (Reinhold, et al., 2012). The purpose of the CellMiner project (http://discover.nci.nih.gov/ cellminer) has been to integrate data from multiple platforms used to analyze the NCI-60 and to provide a powerful suite of tools for exploration of NCI-60 data.

Maintained by Augustin Luna. Last updated 5 months ago.

acgh cellbasedassays copynumbervariation geneexpression pharmacogenomics pharmacogenetics mirna cheminformatics visualization software systemsbiology

2.4 match 5.71 score 113 scripts

icarda-git

QBMS:Query the Breeding Management System(s)

This R package assists breeders in linking data systems with their analytic pipelines, a crucial step in digitizing breeding processes. It supports querying and retrieving phenotypic and genotypic data from systems like 'EBS' <https://ebs.excellenceinbreeding.org/>, 'BMS' <https://bmspro.io>, 'BreedBase' <https://breedbase.org>, and 'GIGWA' <https://github.com/SouthGreenPlatform/Gigwa2> (using 'BrAPI' <https://brapi.org> calls). Extra helper functions support environmental data sources, including 'TerraClimate' <https://www.climatologylab.org/terraclimate.html> and 'FAO' 'HWSDv2' <https://gaez.fao.org/pages/hwsd> soil database.

Maintained by Khaled Al-Shamaa. Last updated 6 months ago.

1.8 match 8 stars 7.70 score 33 scripts 1 dependents

adeelk93

collapsibleTree:Interactive Collapsible Tree Diagrams using 'D3.js'

Interactive Reingold-Tilford tree diagrams created using 'D3.js', where every node can be expanded and collapsed by clicking on it. Tooltips and color gradients can be mapped to nodes using a numeric column in the source data frame. See 'collapsibleTree' website for more information and examples.

Maintained by Adeel Khan. Last updated 1 years ago.

d3js htmlwidgets shiny

1.6 match 159 stars 8.25 score 472 scripts 6 dependents

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

1.1 match 848 stars 11.53 score 566 scripts

bioc

sevenbridges:Seven Bridges Platform API Client and Common Workflow Language Tool Builder in R

R client and utilities for Seven Bridges platform API, from Cancer Genomics Cloud to other Seven Bridges supported platforms.

Maintained by Phil Webster. Last updated 5 months ago.

software dataimport thirdpartyclient api-client bioconductor bioinformatics cloud common-workflow-language sevenbridges

1.8 match 35 stars 7.40 score 24 scripts

radiant-rstats

radiant.data:Data Menu for Radiant: Business Analytics using R and Shiny

The Radiant Data menu includes interfaces for loading, saving, viewing, visualizing, summarizing, transforming, and combining data. It also contains functionality to generate reproducible reports of the analyses conducted in the application.

Maintained by Vincent Nijs. Last updated 5 months ago.

1.6 match 53 stars 8.25 score 146 scripts 6 dependents

selesnow

rtgstat:Client for 'TGStat API'

Allow function for using 'TGStat Stat API' and 'TGStat Search API', for more details see <https://api.tgstat.ru/docs/ru/start/intro.html>. 'TGStat' provide telegram channel analytics data.

Maintained by Alexey Seleznev. Last updated 5 months ago.

3.5 match 8 stars 3.60 score 3 scripts

christophergandrud

repmis:Miscellaneous Tools for Reproducible Research

Tools to load 'R' packages and automatically generate BibTeX files citing them as well as load and cache plain-text and 'Excel' formatted data stored on 'GitHub', and from other sources.

Maintained by Christopher Gandrud. Last updated 9 years ago.

1.7 match 23 stars 7.48 score 394 scripts 10 dependents

timelyportfolio

d3r:'d3.js' Utilities for R

Provides a suite of functions to help ease the use of 'd3.js' in R. These helpers include 'htmltools::htmlDependency' functions, hierarchy builders, and conversion tools for 'partykit', 'igraph,' 'table', and 'data.frame' R objects into the 'JSON' that 'd3.js' expects.

Maintained by Kent Russell. Last updated 1 years ago.

d3 hierarchies hierarchy igraph javascript json

1.5 match 154 stars 8.01 score 174 scripts 5 dependents

sahirbhatnagar

manhattanly:Interactive Q-Q and Manhattan Plots Using 'plotly.js'

Create interactive manhattan, Q-Q and volcano plots that are usable from the R console, in 'Dash' apps, in the 'RStudio' viewer pane, in 'R Markdown' documents, and in 'Shiny' apps. Hover the mouse pointer over a point to show details or drag a rectangle to zoom. A manhattan plot is a popular graphical method for visualizing results from high-dimensional data analysis such as a (epi)genome wide association study (GWAS or EWAS), in which p-values, Z-scores, test statistics are plotted on a scatter plot against their genomic position. Manhattan plots are used for visualizing potential regions of interest in the genome that are associated with a phenotype. Interactive manhattan plots allow the inspection of specific value (e.g. rs number or gene name) by hovering the mouse over a cell, as well as zooming into a region of the genome (e.g. a chromosome) by dragging a rectangle around the relevant area. This work is based on the 'qqman' package and the 'plotly.js' engine. It produces similar manhattan and Q-Q plots as the 'manhattan' and 'qq' functions in the 'qqman' package, with the advantage of including extra annotation information and interactive web-based visualizations directly from R. Once uploaded to a 'plotly' account, 'plotly' graphs (and the data behind them) can be viewed and modified in a web browser.

Maintained by Sahir Bhatnagar. Last updated 4 years ago.

1.7 match 60 stars 7.15 score 78 scripts

bioc

MIRA:Methylation-Based Inference of Regulatory Activity

DNA methylation contains information about the regulatory state of the cell. MIRA aggregates genome-scale DNA methylation data into a DNA methylation profile for a given region set with shared biological annotation. Using this profile, MIRA infers and scores the collective regulatory activity for the region set. MIRA facilitates regulatory analysis in situations where classical regulatory assays would be difficult and allows public sources of region sets to be leveraged for novel insight into the regulatory state of DNA methylation datasets.

Maintained by John Lawson. Last updated 5 months ago.

immunooncology dnamethylation generegulation genomeannotation systemsbiology functionalgenomics chipseq methylseq sequencing epigenetics coverage

1.6 match 12 stars 7.56 score 7 scripts 1 dependents

cloudyr

imguR:'Imgur.com' API Client Package

A complete API client for the image hosting service 'Imgur.com', including the an 'imgur' graphics device, enabling the easy upload and sharing of plots.

Maintained by Thomas J. Leeper. Last updated 7 years ago.

cloudyr imgur

2.0 match 16 stars 5.89 score 46 scripts 7 dependents

bryanhanson

ChemoSpec:Exploratory Chemometrics for Spectroscopy

A collection of functions for top-down exploratory data analysis of spectral data including nuclear magnetic resonance (NMR), infrared (IR), Raman, X-ray fluorescence (XRF) and other similar types of spectroscopy. Includes functions for plotting and inspecting spectra, peak alignment, hierarchical cluster analysis (HCA), principal components analysis (PCA) and model-based clustering. Robust methods appropriate for this type of high-dimensional data are available. ChemoSpec is designed for structured experiments, such as metabolomics investigations, where the samples fall into treatment and control groups. Graphical output is formatted consistently for publication quality plots. ChemoSpec is intended to be very user friendly and to help you get usable results quickly. A vignette covering typical operations is available.

Maintained by Bryan A. Hanson. Last updated 1 years ago.

infrared nmr raman spectroscopy ultraviolet visible xrf

1.5 match 59 stars 7.60 score 45 scripts 1 dependents

bioc

COCOA:Coordinate Covariation Analysis

COCOA is a method for understanding epigenetic variation among samples. COCOA can be used with epigenetic data that includes genomic coordinates and an epigenetic signal, such as DNA methylation and chromatin accessibility data. To describe the method on a high level, COCOA quantifies inter-sample variation with either a supervised or unsupervised technique then uses a database of "region sets" to annotate the variation among samples. A region set is a set of genomic regions that share a biological annotation, for instance transcription factor (TF) binding regions, histone modification regions, or open chromatin regions. COCOA can identify region sets that are associated with epigenetic variation between samples and increase understanding of variation in your data.

Maintained by John Lawson. Last updated 5 months ago.

epigenetics dnamethylation atacseq dnaseseq methylseq methylationarray principalcomponent genomicvariation generegulation genomeannotation systemsbiology functionalgenomics chipseq sequencing immunooncology dna-methylation pca

1.6 match 10 stars 7.02 score 21 scripts

sbg

sevenbridges2:The 'Seven Bridges Platform' API Client

R client and utilities for 'Seven Bridges Platform' API, from 'Cancer Genomics Cloud' to other 'Seven Bridges' supported platforms. API documentation is hosted publicly at <https://docs.sevenbridges.com/docs/the-api>.

Maintained by Marko Trifunovic. Last updated 6 days ago.

api-client bioinformatics cloud sevenbridges

1.8 match 3 stars 6.32 score 4 scripts

ropensci

circle:R Client Package for Circle CI

Tools for interacting with the 'Circle CI' API (<https://circleci.com/docs/api/v2/>). Besides executing common tasks such as querying build logs and restarting builds, this package also helps setting up permissions to deploy from builds.

Maintained by Patrick Schratz. Last updated 3 months ago.

api-client circle-ci continuous-deployment continuous-integration

1.9 match 12 stars 5.86 score 3 scripts

schloerke

gqlr:'GraphQL' Server in R

Server implementation of 'GraphQL' <http://graphql.github.io/graphql-spec/>, a query language originally created by Facebook for describing data requirements on complex application data models. Visit <http://graphql.org> to learn more about 'GraphQL'.

Maintained by Barret Schloerke. Last updated 2 years ago.

2.4 match 58 stars 4.54 score 12 scripts

edwindj

daff:Diff, Patch and Merge for Data.frames

Diff, patch and merge for data frames. Document changes in data sets and use them to apply patches. Changes to data can be made visible by using render_diff(). The 'V8' package is used to wrap the 'daff.js' 'JavaScript' library which is included in the package.

Maintained by Edwin de Jonge. Last updated 1 years ago.

daff data diff

1.6 match 152 stars 6.99 score 133 scripts

aw256

httpRequest:Basic HTTP Request

HTTP Request protocols. Implements the GET, POST and multipart POST request.

Maintained by Andreas Westfeld. Last updated 3 years ago.

10.8 match 1.00 score 7 scripts

bioc

rBiopaxParser:Parses BioPax files and represents them in R

Parses BioPAX files and represents them in R, at the moment BioPAX level 2 and level 3 are supported.

Maintained by Frank Kramer. Last updated 5 months ago.

datarepresentation

1.8 match 10 stars 5.85 score 7 scripts

kwb-r

kwb.wtaq:Interface to WTAQ Drawdown Model (http://water.usgs.gov/ogw/wtaq/)

Functions enabling the writing of WTAQ input files, running of WTAQ and reading of WTAQ output files.

Maintained by Hauke Sonnenberg. Last updated 3 years ago.

drawdown-model groundwater-modelling modelling project-optiwells2 shiny-app usgs wtaq fortran

2.8 match 2 stars 3.78 score 9 scripts 1 dependents

shinyworks

cookies:Use Browser Cookies with 'shiny'

Browser cookies are name-value pairs that are saved in a user's browser by a website. Cookies allow websites to persist information about the user and their use of the website. Here we provide tools for working with cookies in 'shiny' apps, in part by wrapping the 'js-cookie' JavaScript library <https://github.com/js-cookie/js-cookie>.

Maintained by Jon Harmon. Last updated 5 months ago.

1.8 match 33 stars 5.71 score 26 scripts 2 dependents

kharchenkolab

sccore:Core Utilities for Single-Cell RNA-Seq

Core utilities for single-cell RNA-seq data analysis. Contained within are utility functions for working with differential expression (DE) matrices and count matrices, a collection of functions for manipulating and plotting data via 'ggplot2', and functions to work with cell graphs and cell embeddings. Graph-based methods include embedding kNN cell graphs into a UMAP <doi:10.21105/joss.00861>, collapsing vertices of each cluster in the graph, and propagating graph labels.

Maintained by Evan Biederstedt. Last updated 1 years ago.

cpp

1.6 match 12 stars 6.46 score 36 scripts 9 dependents

antoineguillot2

D3partitionR:Interactive Charts of Nested and Hierarchical Data with 'D3.js'

Builds interactive 'd3.js' hierarchical visualisation easily. D3partitionR makes it easy to build and customize sunburst, circle treemap, treemap, partition chart, ...

Maintained by Antoine Guillot. Last updated 6 years ago.

d3js d3partitionr data-visualization r-shiny

2.3 match 40 stars 4.30 score 8 scripts

jiang-hang

rstatscn:R Interface for China National Data

R interface for china national data <http://data.stats.gov.cn/>, some convenient functions for accessing the national data are provided.

Maintained by Xuehui YANG. Last updated 5 years ago.

2.3 match 20 stars 4.15 score 14 scripts

colinfay

proustr:Tools for Natural Language Processing in French

Tools for Natural Language Processing in French and texts from Marcel Proust's collection "A La Recherche Du Temps Perdu". The novels contained in this collection are "Du cote de chez Swann ", "A l'ombre des jeunes filles en fleurs","Le Cote de Guermantes", "Sodome et Gomorrhe I et II", "La Prisonniere", "Albertine disparue", and "Le Temps retrouve".

Maintained by Colin Fay. Last updated 6 years ago.

1.6 match 24 stars 6.10 score 104 scripts

obiba

resourcer:Resource Resolver

A resource represents some data or a computation unit. It is described by a URL and credentials. This package proposes a Resource model with "resolver" and "client" classes to facilitate the access and the usage of the resources.

Maintained by Yannick Marcon. Last updated 2 years ago.

1.9 match 2 stars 5.10 score 42 scripts 1 dependents

stewid

rmatio:Read and Write 'Matlab' Files

Read and write 'Matlab' MAT files from R. The 'rmatio' package supports reading MAT version 4, MAT version 5 and MAT compressed version 5. The 'rmatio' package can write version 5 MAT files and version 5 files with variable compression.

Maintained by Stefan Widgren. Last updated 2 years ago.

zlib

1.6 match 11 stars 5.90 score 115 scripts 2 dependents

yuanchao-xu

gfer:Green Finance and Environmental Risk

Focuses on data collecting, analyzing and visualization in green finance and environmental risk research and analysis. Main function includes environmental data collecting from official websites such as MEP (Ministry of Environmental Protection of China, <https://www.mee.gov.cn>), water related projects identification and environmental data visualization.

Maintained by Yuanchao Xu. Last updated 13 days ago.

corporate-social-responsibility csr data-analysis data-scraping environmental-risk green-finance stock-data

1.8 match 8 stars 5.11 score 16 scripts

strategicprojects

webdav:A Simple Interface for Interacting with 'WebDAV' Servers

An easy-to-use interface for interacting with 'WebDAV' servers, including 'OwnCloud'. It simplifies the use of 'WebDAV' methods such as COPY, MKCOL, MOVE, and others. With built-in authentication and request handling, it allows for easy management of files and directories over the 'WebDAV' protocol.

Maintained by Andre Leite. Last updated 2 months ago.

1.9 match 4.85 score 1 scripts

trangdata

treeheatr:Heatmap-Integrated Decision Tree Visualizations

Creates interpretable decision tree visualizations with the data represented as a heatmap at the tree's leaf nodes. 'treeheatr' utilizes the customizable 'ggparty' package for drawing decision trees.

Maintained by Trang Le. Last updated 2 years ago.

dataviz decision-trees ggplot heatmap visualization

1.6 match 57 stars 5.71 score 18 scripts

timelyportfolio

parcoords:'Htmlwidget' for 'd3.js' Parallel Coordinates Chart

Create interactive parallel coordinates charts with this 'htmlwidget' wrapper for 'd3.js' <https://github.com/BigFatDog/parcoords-es> {'parallel-coordinates'}.

Maintained by Kenton Russell. Last updated 3 years ago.

1.5 match 77 stars 5.73 score 141 scripts

bmcclintock

multimark:Capture-Mark-Recapture Analysis using Multiple Non-Invasive Marks

Traditional and spatial capture-mark-recapture analysis with multiple non-invasive marks. The models implemented in 'multimark' combine encounter history data arising from two different non-invasive "marks", such as images of left-sided and right-sided pelage patterns of bilaterally asymmetrical species, to estimate abundance and related demographic parameters while accounting for imperfect detection. Bayesian models are specified using simple formulae and fitted using Markov chain Monte Carlo. Addressing deficiencies in currently available software, 'multimark' also provides a user-friendly interface for performing Bayesian multimodel inference using non-spatial or spatial capture-recapture data consisting of a single conventional mark or multiple non-invasive marks. See McClintock (2015) <doi:10.1002/ece3.1676> and Maronde et al. (2020) <doi:10.1002/ece3.6990>.

Maintained by Brett T. McClintock. Last updated 2 years ago.

2.3 match 1 stars 3.65 score 30 scripts

pydemull

activAnalyzer:A 'Shiny' App to Analyze Accelerometer-Measured Daily Physical Behavior Data

A tool to analyse 'ActiGraph' accelerometer data and to implement the use of the PROactive Physical Activity in COPD (chronic obstructive pulmonary disease) instruments. Once analysis is completed, the app allows to export results to .csv files and to generate a report of the measurement. All the configured inputs relevant for interpreting the results are recorded in the report. In addition to the existing 'R' packages that are fully integrated with the app, the app uses some functions from the 'actigraph.sleepr' package developed by Petkova (2021) <https://github.com/dipetkov/actigraph.sleepr/>.

Maintained by Pierre-Yves de Müllenheim. Last updated 10 days ago.

accelerometer actigraph app monitor shiny

1.6 match 5 stars 5.24 score 8 scripts

pcbrom

bgumbel:Bimodal Gumbel Distribution

Bimodal Gumbel distribution. General functions for performing extreme value analysis.

Maintained by Pedro C. Brom. Last updated 4 years ago.

bg brom cira gumbel-distribution mcmc pereira roberto-vila

2.7 match 2 stars 3.00 score 1 scripts

bioc

biomaRt:Interface to BioMart databases (i.e. Ensembl)

In recent years a wealth of biological data has become available in public data repositories. Easy access to these valuable data resources and firm integration with data analysis is needed for comprehensive bioinformatics data analysis. biomaRt provides an interface to a growing collection of databases implementing the BioMart software suite (<http://www.biomart.org>). The package enables retrieval of large amounts of data in a uniform way without the need to know the underlying database schemas or write complex SQL queries. The most prominent examples of BioMart databases are maintain by Ensembl, which provides biomaRt users direct access to a diverse set of data and enables a wide range of powerful online queries from gene annotation to database mining.

Maintained by Mike Smith. Last updated 17 days ago.

annotation bioconductor biomart ensembl

0.5 match 38 stars 15.99 score 13k scripts 230 dependents

dwarton

mvabund:Statistical Methods for Analysing Multivariate Abundance Data

A set of tools for displaying, modeling and analysing multivariate abundance data in community ecology. See 'mvabund-package.Rd' for details of overall package organization. The package is implemented with the Gnu Scientific Library (<http://www.gnu.org/software/gsl/>) and 'Rcpp' (<http://dirk.eddelbuettel.com/code/rcpp.html>) 'R' / 'C++' classes.

Maintained by David Warton. Last updated 1 years ago.

gsl cpp

0.8 match 10 stars 10.13 score 680 scripts 5 dependents

urosconf

voronoiTreemap:Voronoi Treemaps with Added Interactivity by Shiny

The d3.js framework with the plugins d3-voronoi-map, d3-voronoi-treemap and d3-weighted-voronoi are used to generate Voronoi treemaps in R and in a shiny application. The computation of the Voronoi treemaps are based on Nocaj and Brandes (2012) <doi:10.1111/j.1467-8659.2012.03078.x>.

Maintained by Alexander Kowarik. Last updated 6 years ago.

1.5 match 56 stars 5.16 score 26 scripts

sahirbhatnagar

eclust:Environment Based Clustering for Interpretable Predictive Models in High Dimensional Data

Companion package to the paper: An analytic approach for interpretable predictive models in high dimensional data, in the presence of interactions with exposures. Bhatnagar, Yang, Khundrakpam, Evans, Blanchette, Bouchard, Greenwood (2017) <DOI:10.1101/102475>. This package includes an algorithm for clustering high dimensional data that can be affected by an environmental factor.

Maintained by Sahir Rai Bhatnagar. Last updated 8 years ago.

1.7 match 2 stars 4.62 score 14 scripts

neuwirthe

RColorBrewer:ColorBrewer Palettes

Provides color schemes for maps (and other graphics) designed by Cynthia Brewer as described at http://colorbrewer2.org.

Maintained by Erich Neuwirth. Last updated 3 years ago.

0.5 match 9 stars 14.38 score 106k scripts 8.2k dependents

bioc

PanomiR:Detection of miRNAs that regulate interacting groups of pathways

PanomiR is a package to detect miRNAs that target groups of pathways from gene expression data. This package provides functionality for generating pathway activity profiles, determining differentially activated pathways between user-specified conditions, determining clusters of pathways via the PCxN package, and generating miRNAs targeting clusters of pathways. These function can be used separately or sequentially to analyze RNA-Seq data.

Maintained by Pourya Naderi. Last updated 5 months ago.

geneexpression genesetenrichment genetarget mirna pathways

1.6 match 3 stars 4.89 score 13 scripts

rstudio

plumber:An API Generator for R

Gives the ability to automatically generate and serve an HTTP API from R functions using the annotations in the R documentation around your functions.

Maintained by Barret Schloerke. Last updated 20 days ago.

api api-server plumber

0.5 match 1.4k stars 14.47 score 2.2k scripts 16 dependents

sdam-au

sdam:Digital Tools for the SDAM Project at Aarhus University

Provides digital tools for performing analyses within Social Dynamics and complexity in the Ancient Mediterranean (SDAM), which is a research group based at the Department of History and Classical Studies at Aarhus University.

Maintained by Antonio Rivero Ostoic. Last updated 3 years ago.

aarhus-university cartography data-visualization dataset digital-humanities encoding extract inscriptions rest-api temporal

2.0 match 4 stars 3.86 score 36 scripts

stla

shinyChakraUI:A Wrapper of the 'React' Library 'Chakra UI' for 'Shiny'

Makes the 'React' library 'Chakra UI' usable in 'Shiny' apps. 'Chakra UI' components include alert dialogs, drawers (sliding panels), menus, modals, popovers, sliders, and more.

Maintained by Stéphane Laurent. Last updated 3 years ago.

react reactr shiny

1.5 match 22 stars 4.98 score 87 scripts

ecor

geotopbricks:An R Plug-in for the Distributed Hydrological Model GEOtop

It analyzes raster maps and other information as input/output files from the Hydrological Distributed Model GEOtop. It contains functions and methods to import maps and other keywords from geotop.inpts file. Some examples with simulation cases of GEOtop 2.x/3.x are presented in the package. Any information about the GEOtop Distributed Hydrological Model source code is available on www.geotop.org. Technical details about the model are available in Endrizzi et al (2014) <https://gmd.copernicus.org/articles/7/2831/2014/gmd-7-2831-2014.html>.

Maintained by Emanuele Cordano. Last updated 2 months ago.

1.6 match 4 stars 4.65 score 112 scripts

bioc

TFutils:TFutils

This package helps users to work with TF metadata from various sources. Significant catalogs of TFs and classifications thereof are made available. Tools for working with motif scans are also provided.

Maintained by Vincent Carey. Last updated 5 months ago.

transcriptomics

1.6 match 4.80 score 21 scripts

tjarkvandemerwe

tidyprompt:Prompt Large Language Models and Enhance Their Functionality

Easily construct prompts and associated logic for interacting with large language models (LLMs). 'tidyprompt' introduces the concept of prompt wraps, which are building blocks that you can use to quickly turn a simple prompt into a complex one. Prompt wraps do not just modify the prompt text, but also add extraction and validation functions that will be applied to the response of the LLM. This ensures that the user gets the desired output. 'tidyprompt' can add various features to prompts and their evaluation by LLMs, such as structured output, automatic feedback, retries, reasoning modes, autonomous R function calling, and R code generation and evaluation. It is designed to be compatible with any LLM provider that offers chat completion.

Maintained by Luka Koning. Last updated 7 days ago.

1.1 match 18 stars 6.64 score 9 scripts

klutometis

functional:Curry, Compose, and other higher-order functions

Curry, Compose, and other higher-order functions

Maintained by Peter Danenberg. Last updated 11 years ago.

1.6 match 1 stars 4.57 score 157 scripts 9 dependents

bioc

recount:Explore and download data from the recount project

Explore and download data from the recount project available at https://jhubiostatistics.shinyapps.io/recount/. Using the recount package you can download RangedSummarizedExperiment objects at the gene, exon or exon-exon junctions level, the raw counts, the phenotype metadata used, the urls to the sample coverage bigWig files or the mean coverage bigWig file for a particular study. The RangedSummarizedExperiment objects can be used by different packages for performing differential expression analysis. Using http://bioconductor.org/packages/derfinder you can perform annotation-agnostic differential expression analyses with the data from the recount project as described at http://www.nature.com/nbt/journal/v35/n4/full/nbt.3838.html.

Maintained by Leonardo Collado-Torres. Last updated 4 months ago.

coverage differentialexpression geneexpression rnaseq sequencing software dataimport immunooncology annotation-agnostic bioconductor count derfinder deseq2 exon gene human illumina junction recount

0.8 match 41 stars 9.57 score 498 scripts 3 dependents

nmecsys

BETS:Brazilian Economic Time Series

It provides access to and information about the most important Brazilian economic time series - from the Getulio Vargas Foundation <http://portal.fgv.br/en>, the Central Bank of Brazil <http://www.bcb.gov.br> and the Brazilian Institute of Geography and Statistics <http://www.ibge.gov.br>. It also presents tools for managing, analysing (e.g. generating dynamic reports with a complete analysis of a series) and exporting these time series.

Maintained by Talitha Speranza. Last updated 4 years ago.

0.9 match 38 stars 7.82 score 108 scripts

yixuan

rARPACK:Solvers for Large Scale Eigenvalue and SVD Problems

Previously an R wrapper of the 'ARPACK' library <http://www.caam.rice.edu/software/ARPACK/>, and now a shell of the R package 'RSpectra', an R interface to the 'Spectra' library <http://yixuan.cos.name/spectra/> for solving large scale eigenvalue/vector problems. The current version of 'rARPACK' simply imports and exports the functions provided by 'RSpectra'. New users of 'rARPACK' are advised to switch to the 'RSpectra' package.

Maintained by Yixuan Qiu. Last updated 9 years ago.

0.8 match 45 stars 9.25 score 177 scripts 51 dependents

ropensci

auk:eBird Data Extraction and Processing in R

Extract and process bird sightings records from eBird (<http://ebird.org>), an online tool for recording bird observations. Public access to the full eBird database is via the eBird Basic Dataset (EBD; see <http://ebird.org/ebird/data/download> for access), a downloadable text file. This package is an interface to AWK for extracting data from the EBD based on taxonomic, spatial, or temporal filters, to produce a manageable file size that can be imported into R.

Maintained by Matthew Strimas-Mackey. Last updated 7 hours ago.

dataset ebird

0.8 match 143 stars 9.25 score 254 scripts

sounkou-bioinfo

goserveR:HTTP File Server with Range Requests and Unbounded CORS using Go

This package provides an interface to an HTTP file server written in Go using Copilot. The server supports range requests and unbounded CORS. It uses the cgo package to call Go functions from R, following the guide at https://purrple.cat/blog/2017/05/14/calling-go-from-r/.

Maintained by Sounkou Mahammane Toure. Last updated 30 days ago.

golang

3.3 match 2.18 score

thinkr-open

mariobox:A Framework For Packaging {plumber} APIs

A framework for building robust {plumber} APIs. This package contains a series of tools to build {plumber} APIs as packages.

Maintained by Colin Fay. Last updated 4 months ago.

2.0 match 38 stars 3.58 score 4 scripts

epistasislab

pmlbr:Interface to the Penn Machine Learning Benchmarks Data Repository

Check available classification and regression data sets from the PMLB repository and download them. The PMLB repository (<https://github.com/EpistasisLab/pmlbr>) contains a curated collection of data sets for evaluating and comparing machine learning algorithms. These data sets cover a range of applications, and include binary/multi-class classification problems and regression problems, as well as combinations of categorical, ordinal, and continuous features. There are currently over 150 datasets included in the PMLB repository.

Maintained by Trang Le. Last updated 20 days ago.

1.6 match 9 stars 4.51 score 18 scripts

cran

datarobot:'DataRobot' Predictive Modeling API

For working with the 'DataRobot' predictive modeling platform's API <https://www.datarobot.com/>.

Maintained by AJ Alon. Last updated 1 years ago.

2.0 match 2 stars 3.48 score

csdaw

uniprotREST:R wrapper for the UniProt website REST API

Simple functions to access the UniProt website REST API. Wraps httr2 functions to easily map IDs and query all available databases.

Maintained by Charlotte Dawson. Last updated 2 years ago.

rest-api uniprot

1.9 match 7 stars 3.69 score 14 scripts

asgr

imager:Image Processing Library Based on 'CImg'

Fast image processing for images in up to 4 dimensions (two spatial dimensions, one time/depth dimension, one colour dimension). Provides most traditional image processing tools (filtering, morphology, transformations, etc.) as well as various functions for easily analysing image data using R. The package wraps 'CImg', <http://cimg.eu>, a simple, modern C++ library for image processing.

Maintained by Aaron Robotham. Last updated 8 days ago.

libx11 fftw3 tiff cpp openmp

0.5 match 17 stars 13.53 score 2.4k scripts 44 dependents

sachsmc

tufterhandout:Tufte-style HTML Document Format for rmarkdown

Custom template and output formats for use with rmarkdown. Produce Edward Tufte-style handouts in html formats with full support for rmarkdown features

Maintained by Michael C Sachs. Last updated 10 years ago.

1.2 match 117 stars 5.88 score 13 scripts

projectmosaic

mosaic:Project MOSAIC Statistics and Mathematics Teaching Utilities

Data sets and utilities from Project MOSAIC (<http://www.mosaic-web.org>) used to teach mathematics, statistics, computation and modeling. Funded by the NSF, Project MOSAIC is a community of educators working to tie together aspects of quantitative work that students in science, technology, engineering and mathematics will need in their professional lives, but which are usually taught in isolation, if at all.

Maintained by Randall Pruim. Last updated 1 years ago.

0.5 match 93 stars 13.32 score 7.2k scripts 7 dependents

r-spatial

lwgeom:Bindings to Selected 'liblwgeom' Functions for Simple Features

Access to selected functions found in 'liblwgeom' <https://github.com/postgis/postgis/tree/master/liblwgeom>, the light-weight geometry library used by 'PostGIS' <http://postgis.net/>.

Maintained by Edzer Pebesma. Last updated 2 months ago.

proj geos cpp

0.5 match 61 stars 12.95 score 1.7k scripts 66 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.

0.5 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.

1.6 match 3 stars 4.18 score 3 scripts

r-lib

pak:Another Approach to Package Installation

The goal of 'pak' is to make package installation faster and more reliable. In particular, it performs all HTTP operations in parallel, so metadata resolution and package downloads are fast. Metadata and package files are cached on the local disk as well. 'pak' has a dependency solver, so it finds version conflicts before performing the installation. This version of 'pak' supports CRAN, 'Bioconductor' and 'GitHub' packages as well.

Maintained by Gábor Csárdi. Last updated 6 days ago.

0.5 match 717 stars 13.03 score 277 scripts 17 dependents

davidcsterratt

geometry:Mesh Generation and Surface Tessellation

Makes the 'Qhull' library <http://www.qhull.org> available in R, in a similar manner as in Octave and MATLAB. Qhull computes convex hulls, Delaunay triangulations, halfspace intersections about a point, Voronoi diagrams, furthest-site Delaunay triangulations, and furthest-site Voronoi diagrams. It runs in 2D, 3D, 4D, and higher dimensions. It implements the Quickhull algorithm for computing the convex hull. Qhull does not support constrained Delaunay triangulations, or mesh generation of non-convex objects, but the package does include some R functions that allow for this.

Maintained by David C. Sterratt. Last updated 2 months ago.

cpp

0.5 match 16 stars 12.98 score 776 scripts 139 dependents

tysonstanley

MarginalMediation:Marginal Mediation

Provides the ability to perform "Marginal Mediation"--mediation wherein the indirect and direct effects are in terms of the average marginal effects (Bartus, 2005, <https://EconPapers.repec.org/RePEc:tsj:stataj:v:5:y:2005:i:3:p:309-329>). The style of the average marginal effects stems from Thomas Leeper's work on the "margins" package. This framework allows the use of categorical mediators and outcomes with little change in interpretation from the continuous mediators/outcomes. See <doi:10.13140/RG.2.2.18465.92001> for more details on the method.

Maintained by Tyson S Barrett. Last updated 3 years ago.

average-marginal-effects margins mediation mediation-analysis mediator partial-effects rstudio

1.5 match 3 stars 4.29 score 13 scripts

gregfrog

WebAnalytics:Web Server Log Analysis

Provides Apache and IIS log analytics for transaction performance, client populations and workload definitions.

Maintained by Greg Hunt. Last updated 1 years ago.

1.7 match 3.78 score 12 scripts

dominodatalab

DominoDataR:'Domino Data R SDK'

A wrapper on top of the 'Domino Data Python SDK' library. It lets you query and access 'Domino Data Sources' directly from your R environment. Under the hood, 'Domino Data R SDK' leverages the API provided by the 'Domino Data Python SDK', which must be installed as a prerequisite. 'Domino' is a platform that makes it easy to run your code on scalable hardware, with integrated version control and collaboration features designed for analytical workflows. See <https://docs.dominodatalab.com/en/latest/api_guide/140b48/domino-data-api> for more information.

Maintained by Gabriel Haim. Last updated 26 days ago.

1.9 match 3.40 score 2 scripts

statnmap

cartomisc:Miscellaneous Tools for Spatial Data Manipulation and Analysis

Some useful tools for use with spatial data.

Maintained by Sebastien Rochette. Last updated 5 years ago.

1.6 match 10 stars 4.04 score 11 scripts

r-lib

credentials:Tools for Managing SSH and Git Credentials

Setup and retrieve HTTPS and SSH credentials for use with 'git' and other services. For HTTPS remotes the package interfaces the 'git-credential' utility which 'git' uses to store HTTP usernames and passwords. For SSH remotes we provide convenient functions to find or generate appropriate SSH keys. The package both helps the user to setup a local git installation, and also provides a back-end for git/ssh client libraries to authenticate with existing user credentials.

Maintained by Jeroen Ooms. Last updated 6 months ago.

git password ssh

0.5 match 72 stars 12.40 score 91 scripts 380 dependents

predictiveecology

NetLogoR:Build and Run Spatially Explicit Agent-Based Models

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

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

0.9 match 40 stars 6.96 score 19 scripts

r-lib

archive:Multi-Format Archive and Compression Support

Bindings to 'libarchive' <http://www.libarchive.org> the Multi-format archive and compression library. Offers R connections and direct extraction for many archive formats including 'tar', 'ZIP', '7-zip', 'RAR', 'CAB' and compression formats including 'gzip', 'bzip2', 'compress', 'lzma' and 'xz'.

Maintained by Gábor Csárdi. Last updated 7 days ago.

compression connections libarchive cpp

0.5 match 144 stars 11.80 score 494 scripts 27 dependents

bczernecki

climate:Interface to Download Meteorological (and Hydrological) Datasets

Automatize downloading of meteorological and hydrological data from publicly available repositories: OGIMET (<http://ogimet.com/index.phtml.en>), University of Wyoming - atmospheric vertical profiling data (<http://weather.uwyo.edu/upperair/>), Polish Institute of Meteorology and Water Management - National Research Institute (<https://danepubliczne.imgw.pl>), and National Oceanic & Atmospheric Administration (NOAA). This package also allows for searching geographical coordinates for each observation and calculate distances to the nearest stations.

Maintained by Bartosz Czernecki. Last updated 25 days ago.

climate climate-data imgw meteorological-data meteorology noaa-data ogimet sounding

0.8 match 88 stars 7.61 score 38 scripts

dominikrafacz

deepdep:Visualise and Explore the Deep Dependencies of R Packages

Provides tools for exploration of R package dependencies. The main deepdep() function allows to acquire deep dependencies of any package and plot them in an elegant way. It also adds some popularity measures for the packages e.g. in the form of download count through the 'cranlogs' package. Uses the CRAN metadata database <http://crandb.r-pkg.org> and Bioconductor metadata <http://bioconductor.org>. Other data acquire functions are: get_dependencies(), get_downloads() and get_description(). The deepdep_shiny() function runs shiny application that helps to produce a nice 'deepdep' plot.

Maintained by Dominik Rafacz. Last updated 2 years ago.

dependencies plot visualization

0.8 match 74 stars 7.60 score 90 scripts

caleblucas

cspp:A Tool for the Correlates of State Policy Project Data

A tool that imports, subsets, visualizes, and exports the Correlates of State Policy Project dataset assembled by Marty P. Jordan and Matt Grossmann (2020) <http://ippsr.msu.edu/public-policy/correlates-state-policy>. The Correlates data contains over 2000 variables across more than 100 years that pertain to state politics and policy in the United States. Users with only a basic understanding of R can subset this data across multiple dimensions, export their search results, create map visualizations, export the citations associated with their searches, and more.

Maintained by Caleb Lucas. Last updated 2 years ago.

2.2 match 2.70 score 10 scripts

htmlwidgets

sparkline:'jQuery' Sparkline 'htmlwidget'

Include interactive sparkline charts <http://omnipotent.net/jquery.sparkline> in all R contexts with the convenience of 'htmlwidgets'.

Maintained by Ramnath Vaidyanathan. Last updated 6 years ago.

0.5 match 245 stars 10.73 score 556 scripts 5 dependents

kwb-r

kwb.odm:Interface to ODM database (see http://his.cuahsi.org/odmdatabases.html)

DEVELOPMENT VERSION!!! Functions enabling to retrieve and filter data from an ODM database.

Maintained by Hauke Sonnenberg. Last updated 4 years ago.

odm-database

2.8 match 2.08 score 1 scripts 4 dependents

hrbrmstr

sergeant:Tools to Transform and Query Data with Apache Drill

Apache Drill is a low-latency distributed query engine designed to enable data exploration and analysis on both relational and non-relational data stores, scaling to petabytes of data. Methods are provided that enable working with Apache Drill instances via the REST API, DBI methods and using 'dplyr'/'dbplyr' idioms. Helper functions are included to facilitate using official Drill Docker images/containers.

Maintained by Bob Rudis. Last updated 4 years ago.

1.7 match 3.45 score 56 scripts

alexfoxfox

rChoiceDialogs:'rChoiceDialogs' Collection

Collection of portable choice dialog widgets.

Maintained by Alex Lisovich. Last updated 3 years ago.

openjdk

1.6 match 3.64 score 49 scripts 3 dependents

r-cas

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

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

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

cpp

0.6 match 40 stars 10.15 score 167 scripts 14 dependents

teppeiyamamoto

mediation:Causal Mediation Analysis

We implement parametric and non parametric mediation analysis. This package performs the methods and suggestions in Imai, Keele and Yamamoto (2010) <DOI:10.1214/10-STS321>, Imai, Keele and Tingley (2010) <DOI:10.1037/a0020761>, Imai, Tingley and Yamamoto (2013) <DOI:10.1111/j.1467-985X.2012.01032.x>, Imai and Yamamoto (2013) <DOI:10.1093/pan/mps040> and Yamamoto (2013) <http://web.mit.edu/teppei/www/research/IVmediate.pdf>. In addition to the estimation of causal mediation effects, the software also allows researchers to conduct sensitivity analysis for certain parametric models.

Maintained by Teppei Yamamoto. Last updated 6 years ago.

0.5 match 10.48 score 896 scripts 11 dependents

rapidsurveys

okapi:Open Data Kit (ODK)-based Computer-assisted Personal Interviewing (CAPI) Tools

Data collection using computer-assisted personal interviewing or CAPI tools is now the standard approach for conducting surveys and studies. A wide range of CAPI systems are currently being used. The ability to interface with these systems helps in the overall data process. This package provides interface functions to CAPI systems based on the Open Data Kit or ODK technology.

Maintained by Ernest Guevarra. Last updated 3 months ago.

capi kobotoolbox odk ona

2.0 match 3 stars 2.65 score 3 scripts

bioc

ADaCGH2:Analysis of big data from aCGH experiments using parallel computing and ff objects

Analysis and plotting of array CGH data. Allows usage of Circular Binary Segementation, wavelet-based smoothing (both as in Liu et al., and HaarSeg as in Ben-Yaacov and Eldar), HMM, GLAD, CGHseg. Most computations are parallelized (either via forking or with clusters, including MPI and sockets clusters) and use ff for storing data.

Maintained by Ramon Diaz-Uriarte. Last updated 1 months ago.

microarray copynumbervariants

1.5 match 3.48 score 3 scripts

msalibian

RobStatTM:Robust Statistics: Theory and Methods

Companion package for the book: "Robust Statistics: Theory and Methods, second edition", <http://www.wiley.com/go/maronna/robust>. This package contains code that implements the robust estimators discussed in the recent second edition of the book above, as well as the scripts reproducing all the examples in the book.

Maintained by Matias Salibian-Barrera. Last updated 18 days ago.

robust robust-estimation robust-regression robust-statistics robustness statistics fortran openblas

0.5 match 17 stars 10.23 score 84 scripts 8 dependents

ropensci

av:Working with Audio and Video in R

Bindings to 'FFmpeg' <http://www.ffmpeg.org/> AV library for working with audio and video in R. Generates high quality video from images or R graphics with custom audio. Also offers high performance tools for reading raw audio, creating 'spectrograms', and converting between countless audio / video formats. This package interfaces directly to the C API and does not require any command line utilities.

Maintained by Jeroen Ooms. Last updated 2 months ago.

ffmpeg

0.5 match 93 stars 10.28 score 552 scripts 15 dependents

david-cortes

isotree:Isolation-Based Outlier Detection

Fast and multi-threaded implementation of isolation forest (Liu, Ting, Zhou (2008) <doi:10.1109/ICDM.2008.17>), extended isolation forest (Hariri, Kind, Brunner (2018) <doi:10.48550/arXiv.1811.02141>), SCiForest (Liu, Ting, Zhou (2010) <doi:10.1007/978-3-642-15883-4_18>), fair-cut forest (Cortes (2021) <doi:10.48550/arXiv.2110.13402>), robust random-cut forest (Guha, Mishra, Roy, Schrijvers (2016) <http://proceedings.mlr.press/v48/guha16.html>), and customizable variations of them, for isolation-based outlier detection, clustered outlier detection, distance or similarity approximation (Cortes (2019) <doi:10.48550/arXiv.1910.12362>), isolation kernel calculation (Ting, Zhu, Zhou (2018) <doi:10.1145/3219819.3219990>), and imputation of missing values (Cortes (2019) <doi:10.48550/arXiv.1911.06646>), based on random or guided decision tree splitting, and providing different metrics for scoring anomalies based on isolation depth or density (Cortes (2021) <doi:10.48550/arXiv.2111.11639>). Provides simple heuristics for fitting the model to categorical columns and handling missing data, and offers options for varying between random and guided splits, and for using different splitting criteria.

Maintained by David Cortes. Last updated 10 days ago.

anomaly-detection imputation isolation-forest outlier-detection cpp openmp

0.5 match 206 stars 10.43 score 115 scripts 6 dependents

bryanhanson

exCon:Interactive Exploration of Contour Data

Interactive tools to explore topographic-like data sets. Such data sets take the form of a matrix in which the rows and columns provide location/frequency information, and the matrix elements contain altitude/response information. Such data is found in cartography, 2D spectroscopy and chemometrics. The functions in this package create interactive web pages showing the contoured data, possibly with slices from the original matrix parallel to each dimension. The interactive behavior is created using the 'D3.js' 'JavaScript' library by Mike Bostock.

Maintained by Bryan A. Hanson. Last updated 8 years ago.

1.6 match 4 stars 3.30 score 1 scripts

santikka

causaleffect:Deriving Expressions of Joint Interventional Distributions and Transport Formulas in Causal Models

Functions for identification and transportation of causal effects. Provides a conditional causal effect identification algorithm (IDC) by Shpitser, I. and Pearl, J. (2006) <http://ftp.cs.ucla.edu/pub/stat_ser/r329-uai.pdf>, an algorithm for transportability from multiple domains with limited experiments by Bareinboim, E. and Pearl, J. (2014) <http://ftp.cs.ucla.edu/pub/stat_ser/r443.pdf>, and a selection bias recovery algorithm by Bareinboim, E. and Tian, J. (2015) <http://ftp.cs.ucla.edu/pub/stat_ser/r445.pdf>. All of the previously mentioned algorithms are based on a causal effect identification algorithm by Tian , J. (2002) <http://ftp.cs.ucla.edu/pub/stat_ser/r309.pdf>.

Maintained by Santtu Tikka. Last updated 2 years ago.

causal-inference causal-models causality-algorithms directed-acyclic-graph graphs identifiability identification igraph

1.0 match 29 stars 5.28 score 44 scripts 1 dependents

sebastianoschneider

utilityFunctionTools:P-Spline Regression for Utility Functions and Derived Measures

Predicts a smooth and continuous (individual) utility function from utility points, and computes measures of intensity for risk and higher order risk measures (or any other measure computed with user-written function) based on this utility function and its derivatives according to the method introduced in Schneider (2017) <http://hdl.handle.net/21.11130/00-1735-0000-002E-E306-0>.

Maintained by Sebastian O. Schneider. Last updated 4 years ago.

5.2 match 1.00 score

opencpu

opencpu:Producing and Reproducing Results

A system for embedded scientific computing and reproducible research with R. The OpenCPU server exposes a simple but powerful HTTP api for RPC and data interchange with R. This provides a reliable and scalable foundation for statistical services or building R web applications. The OpenCPU server runs either as a single-user development server within the interactive R session, or as a multi-user Linux stack based on Apache2. The entire system is fully open source and permissively licensed. The OpenCPU website has detailed documentation and example apps.

Maintained by Jeroen Ooms. Last updated 6 months ago.

0.5 match 733 stars 10.17 score 168 scripts 2 dependents

pratheesh3780

grapesAgri1:Collection of Shiny Apps for Agricultural Research Data Analysis

Allows user to have graphical user interface to perform analysis of Agricultural experimental data. On using the functions in this package a Interactive User Interface will pop up. Apps Works by simple upload of files in CSV format.

Maintained by Pratheesh P. Gopinath. Last updated 1 years ago.

1.6 match 1 stars 3.30 score 3 scripts

jslefche

piecewiseSEM:Piecewise Structural Equation Modeling

Implements piecewise structural equation modeling from a single list of structural equations, with new methods for non-linear, latent, and composite variables, standardized coefficients, query-based prediction and indirect effects. See <http://jslefche.github.io/piecewiseSEM/> for more.

Maintained by Jon Lefcheck. Last updated 10 months ago.

sem

0.5 match 163 stars 9.85 score 452 scripts

r-lib

pkgdepends:Package Dependency Resolution and Downloads

Find recursive dependencies of 'R' packages from various sources. Solve the dependencies to obtain a consistent set of packages to install. Download packages, and install them. It supports packages on 'CRAN', 'Bioconductor' and other 'CRAN-like' repositories, 'GitHub', package 'URLs', and local package trees and files. It caches metadata and package files via the 'pkgcache' package, and performs all 'HTTP' requests, downloads, builds and installations in parallel. 'pkgdepends' is the workhorse of the 'pak' package.

Maintained by Gábor Csárdi. Last updated 6 days ago.

0.5 match 115 stars 9.91 score 67 scripts 5 dependents

bioc

artMS:Analytical R tools for Mass Spectrometry

artMS provides a set of tools for the analysis of proteomics label-free datasets. It takes as input the MaxQuant search result output (evidence.txt file) and performs quality control, relative quantification using MSstats, downstream analysis and integration. artMS also provides a set of functions to re-format and make it compatible with other analytical tools, including, SAINTq, SAINTexpress, Phosfate, and PHOTON. Check [http://artms.org](http://artms.org) for details.

Maintained by David Jimenez-Morales. Last updated 5 months ago.

proteomics differentialexpression biomedicalinformatics systemsbiology massspectrometry annotation qualitycontrol genesetenrichment clustering normalization immunooncology multiplecomparison analysis analytical ap-ms bioconductor bioinformatics mass-spectrometry phosphoproteomics post-translational-modification quantitative-analysis

0.8 match 14 stars 6.41 score 13 scripts

lmullen

gender:Predict Gender from Names Using Historical Data

Infers state-recorded gender categories from first names and dates of birth using historical datasets. By using these datasets instead of lists of male and female names, this package is able to more accurately infer the gender of a name, and it is able to report the probability that a name was male or female. GUIDELINES: This method must be used cautiously and responsibly. Please be sure to see the guidelines and warnings about usage in the 'README' or the package documentation. See Blevins and Mullen (2015) <http://www.digitalhumanities.org/dhq/vol/9/3/000223/000223.html>.

Maintained by Lincoln Mullen. Last updated 3 years ago.

0.5 match 189 stars 9.80 score 265 scripts 7 dependents

hypertidy

crsmeta:Extract Coordinate System Metadata

Obtain coordinate system metadata from various data formats. There are functions to extract a 'CRS' (coordinate reference system, <https://en.wikipedia.org/wiki/Spatial_reference_system>) in 'EPSG' (European Petroleum Survey Group, <http://www.epsg.org/>), 'PROJ4' <https://proj.org/>, or 'WKT2' (Well-Known Text 2, <http://docs.opengeospatial.org/is/12-063r5/12-063r5.html>) forms. This is purely for getting simple metadata from in-memory formats, please use other tools for out of memory data sources.

Maintained by Michael Sumner. Last updated 5 years ago.

0.8 match 5 stars 6.20 score 3 scripts 35 dependents

corynissen

fitbitScraper:Scrapes Data from Fitbit

Scrapes data from Fitbit <http://www.fitbit.com>. This does not use the official API, but instead uses the API that the web dashboard uses to generate the graphs displayed on the dashboard after login at <http://www.fitbit.com>.

Maintained by Cory Nissen. Last updated 8 years ago.

0.8 match 118 stars 5.93 score 12 scripts 1 dependents

palaeoverse

rphylopic:Get Silhouettes of Organisms from PhyloPic

Work with the PhyloPic Web Service (<http://api-docs.phylopic.org/v2/>) to fetch silhouette images of organisms. Includes functions for adding silhouettes to both base R plots and ggplot2 plots.

Maintained by William Gearty. Last updated 6 months ago.

base-r ggplot2 phylopic silhouette

0.5 match 91 stars 9.13 score 272 scripts

rsginc

RSGHB:Functions for Hierarchical Bayesian Estimation: A Flexible Approach

Functions for estimating models using a Hierarchical Bayesian (HB) framework. The flexibility comes in allowing the user to specify the likelihood function directly instead of assuming predetermined model structures. Types of models that can be estimated with this code include the family of discrete choice models (Multinomial Logit, Mixed Logit, Nested Logit, Error Components Logit and Latent Class) as well ordered response models like ordered probit and ordered logit. In addition, the package allows for flexibility in specifying parameters as either fixed (non-varying across individuals) or random with continuous distributions. Parameter distributions supported include normal, positive/negative log-normal, positive/negative censored normal, and the Johnson SB distribution. Kenneth Train's Matlab and Gauss code for doing Hierarchical Bayesian estimation has served as the basis for a few of the functions included in this package. These Matlab/Gauss functions have been rewritten to be optimized within R. Considerable code has been added to increase the flexibility and usability of the code base. Train's original Gauss and Matlab code can be found here: <http://elsa.berkeley.edu/Software/abstracts/train1006mxlhb.html> See Train's chapter on HB in Discrete Choice with Simulation here: <http://elsa.berkeley.edu/books/choice2.html>; and his paper on using HB with non-normal distributions here: <http://eml.berkeley.edu//~train/trainsonnier.pdf>. The authors would also like to thank the invaluable contributions of Stephane Hess and the Choice Modelling Centre: <https://cmc.leeds.ac.uk/>.

Maintained by Jeff Dumont. Last updated 6 years ago.

0.9 match 26 stars 5.30 score 25 scripts 1 dependents

briencj

asremlPlus:Augments 'ASReml-R' in Fitting Mixed Models and Packages Generally in Exploring Prediction Differences

Assists in automating the selection of terms to include in mixed models when 'asreml' is used to fit the models. Procedures are available for choosing models that conform to the hierarchy or marginality principle, for fitting and choosing between two-dimensional spatial models using correlation, natural cubic smoothing spline and P-spline models. A history of the fitting of a sequence of models is kept in a data frame. Also used to compute functions and contrasts of, to investigate differences between and to plot predictions obtained using any model fitting function. The content falls into the following natural groupings: (i) Data, (ii) Model modification functions, (iii) Model selection and description functions, (iv) Model diagnostics and simulation functions, (v) Prediction production and presentation functions, (vi) Response transformation functions, (vii) Object manipulation functions, and (viii) Miscellaneous functions (for further details see 'asremlPlus-package' in help). The 'asreml' package provides a computationally efficient algorithm for fitting a wide range of linear mixed models using Residual Maximum Likelihood. It is a commercial package and a license for it can be purchased from 'VSNi' <https://vsni.co.uk/> as 'asreml-R', who will supply a zip file for local installation/updating (see <https://asreml.kb.vsni.co.uk/>). It is not needed for functions that are methods for 'alldiffs' and 'data.frame' objects. The package 'asremPlus' can also be installed from <http://chris.brien.name/rpackages/>.

Maintained by Chris Brien. Last updated 1 months ago.

asreml mixed-models

0.5 match 19 stars 9.37 score 200 scripts

caleblucas

csppData:Data Only: The Correlates of State Policy Project Dataset

Contains the Correlates of State Policy Project dataset (+ codebook) assembled by Marty P. Jordan and Matt Grossmann (2020) <http://ippsr.msu.edu/public-policy/correlates-state-policy> used by the 'cspp' package. The Correlates data contains over 3000 variables across more than 100 years that pertain to state politics and policy in the United States.

Maintained by Caleb Lucas. Last updated 3 years ago.

2.2 match 2.18 score 1 scripts 1 dependents