R框架、包和软件集合：Awesome R

阅读目录
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
Websites
Books
Reference Card

R框架、包和软件集合：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

Resources
Websites
Books
Reference Card

Other Awesome Lists
Contributing

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.

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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.

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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.

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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.

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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.

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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

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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

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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.

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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.

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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

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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.

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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.

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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.

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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.

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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.

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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.

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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.

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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.

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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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