# Monthly Archives: August 2009

## Applied Spatial Data Analysis with R

August 25, 2009
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I have just reviewed the book Applied Spatial Data Analysis with R which has been published in the September2009  issue of the Royal Statistical Society’s Significance magazine. Applied Spatial Data Analysis with R is an accessible text that demonstrates and explains the handling of spatial data using the R Software Platform. The text’s authors have

## Standardized Velvet Assembly Report

August 25, 2009
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http://code.google.com/p/standardized-velvet-assembly-report/I finally got my Velvet Assembler report script up on google code. This "program" consists of some short scripts and a Sweave report designed to help Velvet users identify the optimal kmer an...

## packages and CRANtastic

August 24, 2009
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Additional functionality in R is added through packages, which consist of libraries of bundled functions, datasets, examples and help files that can be downloaded from CRAN (the Comprehensive R Archive Network). The function install.packages() or the w...

## R help on StackOverflow

August 23, 2009
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Ever since I began using R about ten years ago, the best place to find R help was on the R-help mailing list. But it is time-consuming searching through the archives trying to find something from a long time ago, and there is no way to sort out the goo...

## R handy for crunching data

August 23, 2009
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http://www.ibm.com/developerworks/library/l-sc16.html?S_TACT=105AGX52&S_CMP=cn-a-l

August 22, 2009
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For those who are scared of Emacs: http://sourceforge.net/projects/npptor/

## Test cointegration with R

Cointegrated pairs of securities are crucial for mean reversion trading portfolio construction, Play with cointegration has several good papers to start with. Should you want to test pairs of securities for cointegration using R, here is an excellent ...

## No success yet, then more animations…

August 20, 2009
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So I've been here dealing with the installation of a software that Yihui Xie suggested me to change the format of the animations displayed in R, she told me that all I needed to do was to go to http://imagemagick.org to download ImageMagick for my ope...

## Simple logistic regression on qualitative dichotomic variables

August 20, 2009
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In this post we will see briefly how to implement a logistic regression model if you have categorical variables, or qualitative, organized in double entry contingency tables. In this model the dependent variable (Y) and independent variable (X) are both dichotomies (or Bernoullian).In general, the probability that Y = 1 as a function of predictors is:$$P(Y=1|X=x)=\pi(x)=\frac{exp(\beta_0+\beta_1x_1+\cdots +\beta_kx_k)}{1+exp(\beta_0+\beta_1x_1+\cdots +\beta_kx_k)}$$Our goal...

## ggplot2 Version of Figures in “Lattice: Multivariate Data Visualization with R” (Part 13)

August 20, 2009
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This is the 13th post in a series attempting to recreate the figures in Lattice: Multivariate Data Visualization with R (R code available here) with ggplot2. Previous parts in this series: Part 1, Part 2, Part 3, Part 4, Part 5, Part 6, Part 7, Part 8, Part 9, Part 10, Part 11, Part 12. Chapter 14