R框架、包和軟件集合：Awesome R。

• Awesome R

  • Integrated Development Environment
  • Data Manipulation
  • Graphic Displays
  • Reproducible Research
  • Web Technologies and Services
  • Parallel Computing
  • High Performance
  • Language API
  • Database Management
  • Machine Learning
  • Natural Language Processing
  • Bayesian
  • Finance
  • Genetics
  • R Development
  • Other Interpreter
  </ul> </li>
  • Resources

    • Websites
    • Books
    • Reference Card
    </ul> </li>
    • Other Awesome Lists
    • Contributing
    </ul>

    Integrated Development Environment

    Integrated Development Environment

    • 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.

    Data Manipulation

    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.

    Graphic Displays

    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.

    Reproducible Research

    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.

    Web Technologies and Services

    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.

    Parallel Computing

    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

    High Performance

    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

    Language API

    Packages for other languages.

    • rJava - Low-level R to Java interface.
    • jvmr - Integration of R, Java, and Scala.
    • 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.

    Database Management

    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.

    Machine Learning

    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

    Natural Language Processing

    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.

    Bayesian

    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.

    Finance

    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.

    Genetics

    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 Development

    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.

    Other Interpreter

    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++.

    Resources

    Where to discover new R-esources.

    Websites

    • 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.

    Books

    • 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.

    Reference Card

    • 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.

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