Due Dates of Graded Work
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Henrik's orientation to computing infrastructure
PuTTY: A free telnet/ssh client NX technology and NX clients Bash: Shell for Linux Bash on Wikipedia Linux command line tutorial for beginners VIM: Text editor VIM Tutorial Part of my ~/.vimrc file |
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Quick guide to bash shell scripts
Advanced Bash-Scripting Guide: When you are ready to dive in! Dirsize: Shell script to recursively show directory sizes OpenSSH public key authentication Hunter: Shell script to check computer resources in the department Shell script for least-squares clustering method Rb Script: Because 'R CMD BATCH ...' is a pain R uses a shell script to get itself started |
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Subversion
Version Control with Subversion svn: Command line interface (Recommended over graphical interfaces) KDESvn: Graphical interface for Subversion in KDE TortoiseSVN: Graphical interface for Subversion using Windows Explorer kompare4svn |
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LaTeX
The Not So Short Introduction to LaTeX 2e LaTeX Tutorials: A Primer Kile Spell check a LaTeX file "foo.tex" using "aspell -t -c foo.tex" Including figures in LaTeX documents processed by "pdflatex" Beamer: PowerPoint-like presentations using pdfLaTeX |
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Languages and environments for statistics
Brief history on Unix, GNU, GPL, Linux, and Open Source R Project for Statistical Computing Introduction to R |
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Simulation Studies: Definition and Uses
Monte Carlo Studies in Statistics by James E. Gentle Law of Large Number, Central Limit Theorem, and Monte Carlo simulation Monte Carlo integration, take I Monte Carlo integration, take II Givens and Hoeting, pgs. 143-144 Board game simulation in R |
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Probability distributions in R
Welch's 1938 paper regarding two-sample tests for equality of means Reminder of definition of power Simulation studies comparing Welch's method to others in welch1938.R Simple linear regression illustrated in faithful.R |
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Ruby: Why?
Ruby homepage Ruby documentation Try Ruby! using Firefox (not Konqueror) Ruby in Twenty Minutes Ruby User's Guide Ruby Core Reference Preface and Chapters 1-9 of Programming Ruby text require, load and include: What's the difference?. See Chapter 9 of Programming Ruby text Reminder of definition of p-value Polya urn simulation to compute p-values: Ruby and R |
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Polya urn simulation for power calculations: Ruby
Broccoli module for Ruby RinRuby: R embedded within Ruby Make your own Subversion repositories with 'svnadmin create' |
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Inverse CDF method
Givens and Hoeting, pg. 145 Box-Muller Transformation Sampling from familiar distributions Givens and Hoeting, pg. 146 GNU Scientific Library (GSL) Ruby/GSL Executable Ruby script using Ruby/GSL |
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Discussion of class projects
Rejection sampling Givens and Hoeting, pgs. 147-150 Distribution class and its subclasses in the DBD::Broccoli module Rejection sampling Ruby script run via the ruby-hw BASH script |
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Importance sampling, take I
Importance sampling, take II Givens and Hoeting, pgs. 162-169 Demonstration of importance sampling in R |
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Reading and writing files in Ruby
Chapter 10 and pg. 503-515 of Programming Ruby text RCon example Hotdog example Regular expressions Environments for regexp Quick start on regexp KDE's regular expression editor: kregexpeditor Pg. 68-77 in Programming Ruby text Centroids example Milano example |
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Introduction to Markov chain Monte Carlo (MCMC) in simple-pmf.R
Markov chain Monte Carlo (MCMC), take I MCMC for the beta distribution in R Givens and Hoeting, Chapter 7 introduction, Section 7.1, and Section 7.3 |
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Initial Report for Class Project
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Gibbs sampler for MCMC
Givens and Hoeting, Section 7.2 Gibbs sampler for mean and precision in mean-precision.R Running jobs in the background: 'screen' or simply 'R CMD mean-precision.R &' |
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Maximum likelihood estimation
Newton-Raphson algorithm Givens & Hoeting, Chapter 2 MLE for binomial data via Newton-Raphson in binomial-newton.R and binomial-newton.rb MLE for tied-up normal model via Newton-Raphson in tied-up-normal-mle.rb Monte Carlo study for tied-up normal MLE in monte-carlo-study.rb |
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MLE for logistic regression via Newton-Raphson in nursing.rb
MLE for binomial data via secant method in binomial-secant.R MLE for binomial data via R's built-in functions in binomial-builtin.R |
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Permutation tests
Givens and Hoeting, Section 9.7 Fisher's exact test in dieting.R Test for correlation in gpa.R Test for earnings of brothers in 2005 examination Test for positional dependences among protein backbone torsion angles distributions in densities directory |
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Bootstrapping
Givens and Hoeting, Chapter 9 Emperical CDF in ecdf.R Bootstrap for the confidence interval on the mean in mean-bootstrap.R Bootstrap for the tied-up normal model in tied-up-normal-bootstrap.rb |
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"There are 10 kinds of people in the world - those who understand binary and those who don't."
Binary integer arithmetic Useful KDE programs: kcalc and khexedit Notes for Dean Joe Newton Wikipedia information on IEEE floating point standard Underflow and overflow |
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Exam Topics
Exam and solution from 2005 Exam and solution from 2006 RPy rJava JRuby Commons-Math Colt JAMA The Computer Language Benchmarks Game |
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Examination
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Thanksgiving Holiday
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Project Presentations
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Project Presentations
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Project Presentations
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Project Presentations
Written Project Reports |
