Apendice al curso de R

1
Apendice al curso de R

• Si bien R se puede utilizar desde un curso
  elemental de Estadistica es en los temas
  avanzados de relativamente reciente aparicion
  donde se ve un uso mas intensivo del R vs.
  programas comerciales. Algunos ejemplos son
  Analisis de Microarrays, Bioinformatica,
  Estadistica espacial, etc. En este apendice
  daremos algunas direcciones que pueden ser de
  interes para aquellos que se interesen en esos
  temas.

2
Manuales que aparecen listados en
http//www.R-project.org

• An Introduction to R is based on the former
  "Notes on R", gives an introduction to the
  language and how to use R for doing statistical
  analysis and graphics. browse HTML download
  PDF
• A draft of The R language definition documents
  the language per se. That is, the objects that it
  works on, and the details of the expression
  evaluation process, which are useful to know when
  programming R functions. browse HTML download
  PDF
• Writing R Extensions covers how to create your
  own packages, write R help files, and the foreign
  language (C, C, Fortran, ...) interfaces.
  browse HTML download PDF
• R Data Import/Export describes the import and
  export facilities available either in R itself or
  via packages which are available from CRAN.
  browse HTML download PDF
• R Installation and Administration browse HTML
  download PDF
• The R Reference Index contains all help files of
  the R standard and recommended packages in
  printable form. download PDF, 12MB

3
Tambien aparecen listados estos documentos en
http//www.R-project.org

• Documents with more than 100 pages
• Using R for Data Analysis and Graphics -
  Introduction, Examples and Commentary by John
  Maindonald (PDF, data sets and scripts are
  available at JM's homepage).
• Simple R by John Verzani (PDF, data sets,
  various PDF, PS and a browsable HTML version are
  available at the Simple R homepage).
• Practical Regression and Anova using R by
  Julian Faraway (PDF, data sets and scripts are
  available at the book homepage).
• The Web Appendix to the book An R and S-PLUS
  Companion to Applied Regression by John Fox
  contains information about using S (R and S-PLUS)
  to fit a variety of regression models.
• An Introduction to S and the Hmisc and Design
  Libraries by Carlos Alzola and Frank E. Harrell,
  especially of interest to SAS users, users of the
  Hmisc or Design packages, or R users interested
  in data manipulation, recoding, etc. (PDF)
• Statistical Computing and Graphics Course Notes
  by Frank E. Harrell, includes material on S,
  LaTeX, reproducible research, making good graphs,
  brief overview of computer languaes, etc. (PDF).
• Documents with less than 100 pages
• R for Beginners by Emmanuel Paradis (PDF).
• Kickstarting R (version 1.6) compiled by Jim
  Lemon, a short introduction in English as HTML
  files download as gzipped TAR or ZIP or browse
  directly.
• Notes on the use of R for psychology experiments
  and questionnaires by Jonathan Baron and Yuelin
  Li (PDF). A browsable version is available at
  JB's homepage.
• R for Windows Users (version 2.0) by Ko-Kang
  Wang (PDF, LaTeX source). Updates, a Postscript
  version and a browsable HTML version are
  available at KW's R Resources page.
• Building Microsoft Windows Versions of R and R
  packages under Intel Linux by Jun Yan and A. J.
  Rossini (PDF, associated Makefile).
• A Guide for the Unwilling S User by Patrick
  Burns (PDF).
• The R language a short companion by Marc
  Vandemeulebroecke ( PDF).
• Fitting Distributions with R by Vito Ricci (
  PDF ).
• Econometrics in R by Grant Farnsworth ( PDF
  LaTeX source ).
• The Friendly Beginners' R Course by Topy
  Marthews ( ZIP ).
• Short Documents and Reference Cards

4
Manuales en castellano en http//www.R-project.or
g

• para Principiantes, the Spanish version of R
  for Beginners, translated by Jorge A. Ahumada
  (PDF).
• A Spanish translation of An Introduction to R
  by Andrés González and Silvia González (PDF,
  Texinfo sources).
• Gráficos Estadísticos con R by Juan Carlos
  Correa and Nelfi González (PDF).
• Cartas sobre Estadística de la Revista Argentina
  de Bioingeniería by Marcelo R. Risk (PDF).
• Introducción al uso y programación del sistema
  estadístico R by Ramón Díaz-Uriarte,
  transparencies prepared for a 16-hours course on
  R, addressed mainly to biologists and
  bioinformaticians (PDF). See Ramón's R courses
  page for more information.

5
Algunos libros de metodos estadisticos que
utilizan R

• Hay varios libros recientes sobre todo publicados
  por las editoriales SpringerVerlag y
  ChapmanHall. Aca mencionamos solo unos pocos
• Introductory Statistics with R Peter Dalgaard
• Statistical Analysis and Data Display- An
  Intermediate Course with Examples in S-Plus, R
  and SAS
• A Handbook of Statistical Analysis using
  R-Everitt Hothorn (aparecera el 2006)

6
Paquetes de programas en R

• nlme Linear and nonlinear
  mixed effects models
• nnet Feed-forward Neural
  Networks and Multinomial
• Log-Linear Models
• rpart Recursive Partitioning
• spatial Functions for Kriging and
  Point Pattern
• Analysis
• splines Regression Spline
  Functions and Classes
• stats The R Stats Package
• stats4 Statistical functions
  using S4 classes
• survival Survival analysis,
  including penalised
• likelihood.
• tcltk Tcl/Tk Interface
• tools Tools for Package
  Development
• utils The R Utils Package

• Packages in library 'C/PROGRA1/R/rw2001/library'
  
• base The R Base Package
• boot Bootstrap R (S-Plus)
  Functions (Canty)
• class Functions for
  Classification
• cluster Functions for clustering
  (by Rousseeuw et al.)
• datasets The R Datasets Package
• foreign Read Data Stored by
  Minitab, S, SAS, SPSS,
• Stata, Systat, ...
• graphics The R Graphics Package
• grDevices The R Graphics Devices
  and Support for Colours
• and Fonts
• grid The Grid Graphics Package
• KernSmooth Functions for kernel
  smoothing for Wand
• Jones (1995)
• lattice Lattice Graphics
• MASS Main Package of Venables
  and Ripley's MASS
• methods Formal Methods and
  Classes
• mgcv GAMs with GCV smoothness
  estimation and GAMMs
• by REML/PQL

7
Analisis de Microarreglos (Microarrays)

• El paquete DNAMR (requiere conocimiento de
  programacion R) y DNAMRWeb que es la version
  amigable para el usuario fueron desarrollados por
  J.Cabrera en Rutgers University. Pueden acceder a
  ellos en
• http//www.rci.rutgers.edu/cabrera/DNAMR/
• En las siguiente pagina veran un grafico obtenido
  con DNAMRWeb para el metodo cluster de analisis
  multivariante, cada fila es un gen y cada columna
  es un microarray las columnas estan organizadas
  por tipo de tumor.

8
Grafico obtenido con DNAMRWeb para los datos Kahn

• Los genes mas importantes han sido agrupados
  (cluster) de acuerdo a su nivel de expresion.
  Lo que se busca es identificar que genes estan
  sobreregulados en algunos tipos de tumores pero
  no en otros.

9
Series de Tiempo

• R tiene incorporado un paquete de funciones para
  el analisis de series de tiempo. Para aquellos
  interesados en ensenar (o estudiar) el curso de
  series de tiempo utilizando R recomendamos el
  articulo
• A Computer Evolution in Teaching Undergraduate
  Time Series de Erin M. Hodgess publicado en
  Journal of Statistics Education Volume 12, Number
  3 (2004) y que e puede leer en
• http//www.amstat.org/publications/jse/v12n3/hodge
  ss.html
• Nota la revista Journal of Statistics Education
  es una publicacion de la American Statistical
  Association que se puede leer en la internet sin
  pago alguno de suscripcion.

10
Estadistica Espacial

• Esta es un area de estadistica donde los datos
  tienen una ubicacion geografica. Tiene gran
  aplicacion a los estudios de mineria y
  medioambiente. R es el lenguaje de preferencia en
  esa area.
• La informacion acerca del uso de R en estadistica
  espacial la pueden encontrar en la pagina del
  projecto R
• http//sal.uiuc.edu/csiss/Rgeo/