R框架、包和软件集合:Awesome R

jopen 7年前

R框架、包和软件集合:Awesome R。

  • Awesome R </li>
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    • Books
    • Reference Card
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    • Contributing
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      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.


      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.


      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.


      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++.


      Where to discover new R-esources.


      • 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.


      • 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

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