Geneseo

Materials for Geneseo UMB course, 1-5 June

Monday

• epi lecture 1 (basics): epi1.xml epi1.pdf
• epi lecture 2 (thinking about data): epi2.xml epi2.pdf
• lab 1: lab1.xml lab1.pdf
  • data/script files: ChlorellaGrowth.txt, Intro1.R, Intro2.R
• incantation for making Tinn-R copy and paste blocks correctly:

.trPaths <- paste(paste(Sys.getenv('APPDATA'),
      '\\Tinn-R\\tmp\\', sep=''),
        c('', 'search.txt', 'objects.txt','file.r',
       'selection.r','block.r','lines.r'), sep='')

Tuesday

• deterministic functions: determ.xml determ.pdf
• lab: lab3.xml lab3.pdf
• stochastic stuff/lab: stoch.pdf stoch.R stoch.xml
• basic simulations: sim1.pdf sim1.R sim1.xml
• more simulations: sim2.pdf sim2.R sim2.xml

Wednesday

• chain binomial code: chainbinom.R
• Niamey measles data: commune.measles.csv
• Bombay plague data: bombayplague.csv
• fitting and likelihoods …

Swine flu stuff:

• cumulative cases by state: h1n1_cases.csv
• cumulative deaths by state: h1n1_deaths.csv
• python code to scrape CDC website: scrape3.py (requires the BeautifulSoup HTML parser)
• R code to clean/assemble scraped files: fluscrape.R
• miscellaneous R code for map and miscellaneous plotting: flumap.R, fluplots.R