# Chapter 3 Carrying out the test

In this section, we will carry out a one-way ANOVA to test whether the average flipper length is different between species. We can propose this question in the form of the following hypotheses:

\[H_0: \mu_1 = \mu_2 = \mu_3 \text{ versus } H_1: \text{not all } \mu_i\text{'s are equal,}\]

where:

- \(\mu_1\) denotes the true average flipper length of Adelie species penguins
- \(\mu_2\) denotes the true average flipper length of Chinstrap species penguins
- \(\mu_3\) denotes the true average flipper length of Gentoo species penguins.

Previously, when carrying out \(t\)-tests, we have calculated a test statistic and then evaluated how extreme this was by using the \(t\)-distribution. However, for ANOVA tests, we use the \(F\)-distribution. The \(F\)-distribution is defined by two degrees of freedom: \(d_1\) and \(d_2\). For a one-way ANOVA, we have that:

- \(d_1 = k - 1\), where \(k\) is the number of groups. This is the "between group" degrees of freedom.
- \(d_2 = N - k\), where \(N\) is the total sample size. This is the "within group" degrees of freedom.

So for our particular example, we have that \(d_1 = 3 - 1 = 2\) and \(d_2 = 342 - 3 = 339\), so that the distribution that will be used is the \(F_{2, 339}\) distribution. The below figure shows some example density curves of the \(F\) distribution for varying degrees of freedom:

For a one-way ANOVA, the test statistic, or the \(F\) value, is calculated by estimating the ratio of ** between group variation** to

**: \(\displaystyle \frac{\text{between group variation}}{\text{within group variation}}\). The**

*within group variation***is a measure of how much the group means vary as compared with the overall mean. The**

*between group variation***is a measure of how much individuals within a group vary from their group mean. If the**

*within group variation***is much larger than the**

*between group variation***, then the \(F\)-statistic will be very large and lead to a statistically significant result. On the other hand, if the**

*within group variation***is not large compared to the**

*between group variation***, then the \(F\)-statistic will not be large and subsequently will not lead to a statistically significant result.**

*within group variation*We are now ready to carry out the one-way ANOVA. The results of the test are as follows:

```
Df Sum Sq Mean Sq F value Pr(>F)
species 2 52473 26237 594.8 <2e-16 ***
Residuals 339 14953 44
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
2 observations deleted due to missingness
```

Assuming (for now) that the assumptions have been met, we note the following:

- The
**\(p\)-value**(read from the`Pr(>F)`

column) is almost 0, which is much less than 0.05, so we reject \(H_0\). That is, we have enough evidence to conclude that there is a statistically significant difference between groups - The significant result tells us that at least one of the groups is significantly different from the others, but it does not tell us which group(s), or how many. We will carry out pot-hoc tests later for further analysis
- The test statistic (
`F value`

) is \(F = 594.8\) - \(d_1 = 2\) (read from the
`Df`

column,`species`

row) - \(d_2 = 339\) (read from the
`Df`

column,`Residuals`

row) - To summarise, we can write: There was a significant difference in mean flipper length [F(2, 339) = 594.8, \(p < .001\)] between penguin species.