Partial Eta Squared

The Difference Between Eta Squared and Partial Eta Squared

December 16th, 2011 by

It seems every editor and her brother these days wants to see standardized effect size statistics reported in journal articles.

For ANOVAs, two of the most popular are Eta-squared and partial Eta-squared.  In one way ANOVAs, they come out the same, but in more complicated models, their values, and their meanings differ.

SPSS only reports partial Eta-squared, and in earlier versions of the software it was (unfortunately) labeled Eta-squared.  More recent versions have fixed the label, but still don’t offer Eta-squared as an option.

Luckily Eta-squared is very simple to calculate yourself based on the sums of squares in your ANOVA table. I’ve written another blog post with all the formulas. You can (more…)

A Comparison of Effect Size Statistics

January 13th, 2011 by

If you’re in a field that uses Analysis of Variance, you have surely heard that p-values don’t indicate the size of an effect. You also need tostage 1 report effect size statistics.

Why? Because with a big enough sample size, any difference in means, no matter how small, can be statistically significant. P-values are designed to tell you if your result is a fluke, not if it’s big.

Unstandardized Effect Size Statistics

Truly the simplest and most straightforward effect size measure is the difference between two means. And you’re probably already reporting that. But the limitation of this measure as an effect size is not inaccuracy. It’s just hard to evaluate.

If you’re familiar with an area of research and the variables used in that area, you should know if a 3-point difference is big or small, although your readers may not. And if you’re evaluating a new type of variable, it can be hard to tell.

Standardized Effect Size Statistics

Standardized effect size statistics are designed for easier evaluation. They remove the units of measurement, so you don’t have to be familiar with the scaling of the variables.

Cohen’s d is a good example of a standardized effect size measurement. It’s equivalent in many ways to a standardized regression coefficient (labeled beta in some software). Both are standardized measures. They divide the size of the effect by the relevant standard deviations. So instead of being in terms of the original units of X and Y, both Cohen’s d and standardized regression coefficients are in terms of standard deviations.

There are some nice properties of standardized effect size measures. The foremost is you can compare them across variables. And in many situations, seeing differences in terms of number of standard deviations is very helpful.


But they are most useful if you can also recognize their limitations. Unlike correlation coefficients, both Cohen’s d and beta can be greater than one. So while you can compare them to each other, you can’t just look at one and tell right away what is big or small. You’re just looking at the effect of the independent variable in terms of standard deviations.

This is especially important to note for Cohen’s d, because in his original book, he specified certain d values as indicating small, medium, and large effects in behavioral research. While the statistic itself is a good one, you should take these size recommendations with a grain of salt (or maybe a very large bowl of salt). What is a large or small effect is highly dependent on your specific field of study, and even a small effect can be theoretically meaningful.

Variance Explained

Another set of effect size measures have a more intuitive interpretation, and are easier to evaluate. They include Eta Squared, Partial Eta Squared, and Omega Squared. Like the R Squared statistic, they all have the intuitive interpretation of the proportion of the variance accounted for.

Eta Squared is calculated the same way as R Squared, and has the most equivalent interpretation: out of the total variation in Y, the proportion that can be attributed to a specific X.

Eta Squared, however, is used specifically in ANOVA models. Each effect in the model has its own Eta Squared. So you get a specific, intuitive measure of the effect of that variable.

Eta Squared has two drawbacks, however. One is that as you add more variables to the model, the proportion explained by any one variable will automatically decrease. This makes it hard to compare the effect of a single variable in different studies.

Partial Eta Squared solves this problem, but has a less intuitive interpretation. There, the denominator is not the total variation in Y, but the unexplained variation in Y plus the variation explained just by that X. So any variation explained by other Xs is removed from the denominator. This allows a researcher to compare the effect of the same variable in two different studies, which contain different covariates or other factors.

In a one-way ANOVA, Eta Squared and Partial Eta Squared will be equal. But this isn’t true in models with more than one independent variable.

The drawback for Eta Squared is that it is a biased measure of population variance explained (although it is accurate for the sample). It always overestimates it.

This bias gets very small as sample size increases. For small samples, an unbiased effect size measure is Omega Squared. Omega Squared has the same basic interpretation, but uses unbiased measures of the variance components. Because it is an unbiased estimate of population variances, Omega Squared is always smaller than Eta Squared.

See my post containing equations of all these effect size measures and a list of great references for further reading on effect sizes.


How to Calculate Effect Size Statistics

January 13th, 2011 by

There are many effect size statistics for ANOVA and regression, and as you may have noticed, journal editors are now requiring you include one.

Unfortunately, the one your editor wants or is the one most appropriate to your research may not be the one your software makes available (SPSS, for example, reports Partial Eta Squared only, although it labels it Eta Squared in early versions).

Luckily, all the effect size measures are relatively easy to calculate from information in the ANOVA table on your output.  Here are a few common ones: (more…)