qinwf/awesome-R

Awesome R

A curated list of awesome R frameworks, packages and software. Inspired by awesome-machine-learning.

集成开发环境

RStudio - A powerful and productive user interface for R. Works great on Windows, Mac, and Linux.
JGR - JGR (speak 'Jaguar') is a Java Gui for R.
Emacs + ESS - Emacs Speaks Statistics is an add-on package for emacs text editors.
StatET - An Eclipse based IDE (integrated development environment) for R.
Revolution R Enterprise - Revolution R would be offered free to academic users and commercial software would focus on big data, large scale multiprocessor functionality.
R Commander - A package that provides a basic graphical user interface.
IPython - An interactive Python interpreter,and it supports execution of R code while capturing both output and figures.
Deducer - A Menu driven data analysis GUI with a spreadsheet like data editor.

数据操作

Packages for cooking data.

dplyr - Blazing fast data frames manipulation and database query.
data.table - Fast data manipulation in a short and flexible syntax.
reshape2 - Flexible rearrange, reshape and aggregate data.
tidyr - Easily tidy data with spread and gather functions.

图形显示

Packages for showing data.

ggplot2 - An implementation of the Grammar of Graphics.
ggvis - Interactive grammar of graphics for R.
rCharts - Interactive JS Charts from R.
lattice - A powerful and elegant high-level data visualization system.
rgl - 3D visualization device system for R.
Cairo - R graphics device using cairo graphics library for creating high-quality display output.
extrafont - Tools for using fonts in R graphics.
showtext - Enable R graphics device to show text using system fonts.

可再生的研究

Packages for literate programming.

knitr - Easy dynamic report generation in R.
xtable - Export tables to LaTeX or HTML.
rapport - An R templating system.
rmarkdown - Dynamic documents for R.

网络技术和服务

Packages to surf the web.

shiny - Easy interactive web applications with R.
RCurl - General network (HTTP/FTP/...) client interface for R.
httpuv - HTTP and WebSocket server library.
XML - Tools for parsing and generating XML within R.

并行计算

Packages for parallel computing.

parallel - R started with release 2.14.0 which includes a new package parallel incorporating (slightly revised) copies of packages multicore and snow.
Rmpi - Rmpi provides an interface (wrapper) to MPI APIs. It also provides interactive R slave environment.
foreach - Executing the loop in parallel

高性能

Packages for making R faster.

Rcpp - Rcpp provides a powerful API on top of R, make function in R extremely faster.
Rcpp11 - Rcpp11 is a complete redesign of Rcpp, targetting C++11.
compiler - speeding up your R code using the JIT

语言 API

Packages for other languages.

rJava - Low-level R to Java interface.
rJython - R interface to Python via Jython.
rPython - Package allowing R to call Python.
runr - Run Julia and Bash from R.
RJulia - R package Call Julia.
RinRuby - a Ruby library that integrates the R interpreter in Ruby.
R.matlab - Read and write of MAT files together with R-to-MATLAB connectivity.
RcppOctave - Seamless Interface to Octave and Matlab.
RSPerl - A bidirectional interface for calling R from Perl and Perl from R.

数据库管理

Packages for managing data.

RODBC - ODBC database access for R.
DBI - Defines a common interface between the R and database management systems.
RMySQL - R interface to the MySQL database.
ROracle - OCI based Oracle database interface for R.
RPostgreSQL - R interface to the PostgreSQL database system.
RSQLite - SQLite interface for R
RJDBC - Provides access to databases through the JDBC interface.
rmongodb - R driver for MongoDB.
rredis - Redis client for R.
RCassandra - Direct interface (not Java) to the most basic functionality of Apache Cassanda.
RHive - R extension facilitating distributed computing via Apache Hive.

机器学习

Packages for making R cleverer.

h2o - Deeplearning, Random forests, GBM, KMeans, PCA, GLM
Clever Algorithms For Machine Learning
Machine Learning For Hackers
rpart - Recursive Partitioning and Regression Trees
randomForest - Breiman and Cutler's random forests for classification and regression
lasso2 - L1 constrained estimation aka ‘lasso’
gbm - Generalized Boosted Regression Models
e1071 - Misc Functions of the Department of Statistics (e1071), TU Wien
tgp - Bayesian treed Gaussian process models
rgp - R genetic programming framework
arules - Mining Association Rules and Frequent Itemsets
frbs - Fuzzy Rule-based Systems for Classification and Regression Tasks
rattle - Graphical user interface for data mining in R
ahaz - Regularization for semiparametric additive hazards regression
arules - Mining Association Rules and Frequent Itemsets
bigrf - Big Random Forests: Classification and Regression Forests for Large Data Sets
bigRR - Generalized Ridge Regression (with special advantage for p >> n cases)
bmrm - Bundle Methods for Regularized Risk Minimization Package
Boruta - A wrapper algorithm for all-relevant feature selection
bst - Gradient Boosting
C50 - C5.0 Decision Trees and Rule-Based Models
caret - Classification and Regression Training
CORElearn - Classification, regression, feature evaluation and ordinal evaluation
CoxBoost - Cox models by likelihood based boosting for a single survival endpoint or competing risks
Cubist - Rule- and Instance-Based Regression Modeling
earth - Multivariate Adaptive Regression Spline Models
elasticnet - Elastic-Net for Sparse Estimation and Sparse PCA
ElemStatLearn - Data sets, functions and examples from the book: "The Elements of Statistical Learning, Data Mining, Inference, and Prediction" by Trevor Hastie, Robert Tibshirani and Jerome Friedman
evtree - Evolutionary Learning of Globally Optimal Trees
frbs - Fuzzy Rule-based Systems for Classification and Regression Tasks
GAMBoost - Generalized linear and additive models by likelihood based boosting
gamboostLSS - Boosting Methods for GAMLSS
gbm - Generalized Boosted Regression Models
glmnet - Lasso and elastic-net regularized generalized linear models
glmpath - L1 Regularization Path for Generalized Linear Models and Cox Proportional Hazards Model
GMMBoost - Likelihood-based Boosting for Generalized mixed models
grplasso - Fitting user specified models with Group Lasso penalty
grpreg - Regularization paths for regression models with grouped covariates
hda - Heteroscedastic Discriminant Analysis
ipred - Improved Predictors
kernlab - kernlab: Kernel-based Machine Learning Lab
klaR - Classification and visualization
lars - Least Angle Regression, Lasso and Forward Stagewise
lasso2 - L1 constrained estimation aka ‘lasso’
LiblineaR - Linear Predictive Models Based On The Liblinear C/C++ Library
LogicReg - Logic Regression
maptree - Mapping, pruning, and graphing tree models
mboost - Model-Based Boosting
mvpart - Multivariate partitioning
ncvreg - Regularization paths for SCAD- and MCP-penalized regression models
nnet - eed-forward Neural Networks and Multinomial Log-Linear Models
oblique.tree - Oblique Trees for Classification Data
pamr - Pam: prediction analysis for microarrays
party - A Laboratory for Recursive Partytioning
partykit - A Toolkit for Recursive Partytioning
penalized - L1 (lasso and fused lasso) and L2 (ridge) penalized estimation in GLMs and in the Cox model
penalizedLDA - Penalized classification using Fisher's linear discriminant
penalizedSVM - Feature Selection SVM using penalty functions
quantregForest - quantregForest: Quantile Regression Forests
randomForest - randomForest: Breiman and Cutler's random forests for classification and regression
randomForestSRC - randomForestSRC: Random Forests for Survival, Regression and Classification (RF-SRC)
rda - Shrunken Centroids Regularized Discriminant Analysis
rdetools - Relevant Dimension Estimation (RDE) in Feature Spaces
REEMtree - Regression Trees with Random Effects for Longitudinal (Panel) Data
relaxo - Relaxed Lasso
rgenoud - R version of GENetic Optimization Using Derivatives
rgp - R genetic programming framework
Rmalschains - Continuous Optimization using Memetic Algorithms with Local Search Chains (MA-LS-Chains) in R
rminer - Simpler use of data mining methods (e.g. NN and SVM) in classification and regression
ROCR - Visualizing the performance of scoring classifiers
RoughSets - Data Analysis Using Rough Set and Fuzzy Rough Set Theories
rpart - Recursive Partitioning and Regression Trees
RPMM - Recursively Partitioned Mixture Model
RSNNS - Neural Networks in R using the Stuttgart Neural Network Simulator (SNNS)
RWeka - R/Weka interface
RXshrink - RXshrink: Maximum Likelihood Shrinkage via Generalized Ridge or Least Angle Regression
sda - Shrinkage Discriminant Analysis and CAT Score Variable Selection
SDDA - Stepwise Diagonal Discriminant Analysis
svmpath - svmpath: the SVM Path algorithm
tgp - Bayesian treed Gaussian process models
tree - Classification and regression trees
varSelRF - Variable selection using random forests
caret - Unified interface to ~150 ML algorithms in R.
SuperLearner and subsemble - Multi-algorithm ensemble learning packages.
Introduction to Statistical Learning

自然语言处理

Packages for Natural Language Processing.

tm - A comprehensive text mining framework for R.
openNLP - Apache OpenNLP Tools Interface.
koRpus - An R Package for Text Analysis.
zipfR - Statistical models for word frequency distributions.
tmcn - A Text mining toolkit for international characters especially for Chinese.
rmmseg4j - R interface to the Java Chinese word segmentation system of mmseg4j.
Rwordseg - Chinese word segmentation.

贝叶斯

Packages for Bayesian Inference.

coda - Output analysis and diagnostics for MCMC.
mcmc - Markov Chain Monte Carlo.
MCMCpack - Markov chain Monte Carlo (MCMC) Package.
R2WinBUGS - Running WinBUGS and OpenBUGS from R / S-PLUS.
BRugs - R interface to the OpenBUGS MCMC software.

金融

Packages for dealing with money.

quantmod - Quantitative Financial Modelling & Trading Framework for R.
TTR - Functions and data to construct technical trading rules with R.
PerformanceAnalytics - Econometric tools for performance and risk analysis.
zoo - S3 Infrastructure for Regular and Irregular Time Series.
xts - eXtensible Time Series.
tseries - Time series analysis and computational finance.
fAssets - Analysing and Modelling Financial Assets.

遗传学

Packages for Statistical Genetics.

Bioconductor - Tools for the analysis and comprehension of high-throughput genomic data.
genetics - Classes and methods for handling genetic data.
gap - An integrated package for genetic data analysis of both population and family data.
ape - Analyses of Phylogenetics and Evolution.

R 开发

Packages for packages.

devtools - Tools to make an R developer's life easier.
testthat - An R package to make testing fun.
R6 - simpler, faster, lighter-weight alternative to R's built-in classes.
pryr - Make it easier to understand what's going on in R.
roxygen - Describe your functions in comments next to their definitions.
lineprof - Visualise line profiling results in R.
packrat - Make your R projects more isolated, portable, and reproducible.
installr - Functions for installing softwares from within R.

其他翻译

Alternative R engines.

renjin - a JVM-based interpreter for R.
pqR - a "pretty quick" implementation of R
fastR - FastR is an implementation of the R Language in Java atop Truffle and Graal.
riposte - a fast interpreter and JIT for R.
TERR - TIBCO Enterprise Runtime for R.
RRE - Revolution R Enterprise.
CXXR - Refactorising R into C++.

资源

Where to discover new R-esources.

网站

R-project - The R Project for Statistical Computing.
R Bloggers - There are people scattered across the Web who blog about R. This is simply an aggregator of many of those feeds.
DataCamp - Learn R data analytics online.
Quick-R - An excellent quick reference.
Advanced R - An in-progress book site for Advanced R.
CRAN Task Views - Task Views for CRAN packages.

书籍

The Art of R Programming - It's a good resource for systematically learning fundamentals such as types of objects, control statements, variable scope, classes and debugging in R.
R in Action - This book aims at all levels of users, with sections for beginning, intermediate and advanced R ranging from "Exploring R data structures" to running regressions and conducting factor analyses.
Use R! - This series of inexpensive and focused books from Springer publish shorter books aimed at practitioners. Books can discuss the use of R in a particular subject area, such as bayesian networks, ggplot2 and Rcpp.

参考卡片

R Reference Card 2.0 - Material from R for Beginners by permission of Emmanuel Paradis (Version 2 by Matt Baggott).
Data Mining Refcard - R Reference Card for Data Mining.
Regression Analysis Refcard - R Reference Card for Regression Analysis.
Reference Card for ESS - Reference Card for ESS.
R Markdown Cheat sheet - Quick reference guide for writing reports with R Markdown.
Shiny Cheat sheet - Quick reference guide for building Shiny apps.

R