# Hurricanes and Reproducible Research

**PirateGrunt » R**, and kindly contributed to R-bloggers]. (You can report issue about the content on this page here)

Want to share your content on R-bloggers? click here if you have a blog, or here if you don't.

On vacation with my family this week and that means I have a few minutes now and again to read. One of the books I brought along is Christopher Gandrud’s excellent “Reproducible Research with R and RStudio”.

Looking for some data as a test project, I latched onto Hurricane data. Folly Beach was hit pretty hard by hurricane Hugo in 1989. It’s easy (though not terribly enjoyable) to imagine the damage such an event would do to a small coastal community like this. What’s the likelihood that a hurricane will hit here again? What does it depend on? Obviously smarter minds than mine are hard at work on this. I can’t hope to eclipse their knowledge, but this is a bit of fun to think about.

The project is available on GitHub here: https://github.com/PirateGrunt/Hurricane. If Gandrud has taught me anything, everything that I do will be easy to reproduce. As a first step, I show that (for this data) decade is a useful predictor for the number of hurricanes per year. I’m going to be a bit lazy and paste the HTML for the basic analysis file into this blog post. The raw code is available on GitHub.

First, read in the data for number of hurricanes by year and then fit a poisson.

setwd("~/GitHub/Hurricane/Data") df = read.csv("HurricaneByYear.csv") fitPoissonAll = glm(Num ~ 1, family = poisson, data = df) summary(fitPoissonAll) </code> <code>## ## Call: ## glm(formula = Num ~ 1, family = poisson, data = df) ## ## Deviance Residuals: ## Min 1Q Median 3Q Max ## -3.789 -1.521 -0.485 0.733 5.098 ## ## Coefficients: ## Estimate Std. Error z value Pr(>|z|) ## (Intercept) 2.3546 0.0243 97 <2e-16 *** ## --- ## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 ## ## (Dispersion parameter for poisson family taken to be 1) ## ## Null deviance: 434.14 on 160 degrees of freedom ## Residual deviance: 434.14 on 160 degrees of freedom ## AIC: 1093 ## ## Number of Fisher Scoring iterations: 4 </code> <code class="r"> lambda = exp(fitPoissonAll$coefficients[1])

We’ll note that the estimated lambda is equal to the sample mean.

mean(df$Num) </code> <code>## [1] 10.53 </code> <code class="r">lambda </code> <code>## (Intercept) ## 10.53

Now, we’ll plot the number of hurricanes by year along with a line for the poisson parameter

plot(df$Year, df$Num, pch = 19) abline(lambda, 0)

Hmm, looks like the more recent years have more points above the fit line. Let’s have a look. We’ll color the points so that observations above the mean are red and observations below the mean are blue.

ltAvg = ifelse(df$Num < lambda, "blue", "red") summary(ltAvg) </code> <code>## Length Class Mode ## 161 character character </code> <code class="r">table(ltAvg) </code> <code>## ltAvg ## blue red ## 95 66 </code> <code class="r">plot(df$Year, df$Num, pch = 19, col = ltAvg) abline(lambda, 0)

Yep, there definitely appear to be more hurricanes in recent years. Let’s add a parameter for the decade to see if it improves the fit.

df$Decade = trunc(df$Year/10) df$Decade = df$Decade - min(df$Decade) summary(df$Decade) </code> <code>## Min. 1st Qu. Median Mean 3rd Qu. Max. ## 0.00 4.00 8.00 7.65 12.00 16.00 </code> <code class="r">fitPoissonByDecade = glm(Num ~ 1 + Decade, family = poisson, data = df) summary(fitPoissonByDecade) </code><code>## ## Call: ## glm(formula = Num ~ 1 + Decade, family = poisson, data = df) ## ## Deviance Residuals: ## Min 1Q Median 3Q Max ## -3.382 -0.947 -0.180 0.639 3.932 ## ## Coefficients: ## Estimate Std. Error z value Pr(>|z|) ## (Intercept) 1.76656 0.05484 32.2 <2e-16 *** ## Decade 0.06999 0.00538 13.0 <2e-16 *** ## --- ## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 ## ## (Dispersion parameter for poisson family taken to be 1) ## ## Null deviance: 434.14 on 160 degrees of freedom ## Residual deviance: 259.70 on 159 degrees of freedom ## AIC: 920.7 ## ## Number of Fisher Scoring iterations: 4

The null deviance decreases far more than would be expected if the decade had no predictive power. We’ll plot the prediction against the observations. A step function will make the most sense visually.

df$DecadePredict = exp(predict(fitPoissonByDecade)) plot(df$Year, df$Num, pch = 19) lines(df$Year, df$DecadePredict, type = "s")

ltAvg = ifelse(df$Num < df$DecadePredict, "blue", "red") plot(df$Year, df$Num, pch = 19, col = ltAvg) lines(df$Year, df$DecadePredict, type = "s")

So, there appear to be more hurricanes in recent decades. Is this because of some meterological or atmospheric change? Or does it have something to do with the way observations have been collected? I’ll look into that next.

**leave a comment**for the author, please follow the link and comment on their blog:

**PirateGrunt » R**.

R-bloggers.com offers

**daily e-mail updates**about R news and tutorials about learning R and many other topics. Click here if you're looking to post or find an R/data-science job.

Want to share your content on R-bloggers? click here if you have a blog, or here if you don't.