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My sjstats-package has been updated on CRAN. The past updates introduced new functions for various purposes, e.g. predictive accuracy of regression models or improved support for the marvelous glmmTMB-package. The current update, however, added some ANOVA tools to the package.

In this post, I want to give a short overview of these new functions, which report different effect size measures. These are useful beyond significance tests (p-values), because they estimate the magnitude of effects, independent from sample size. sjstats provides following functions:

• eta_sq()
• omega_sq()
• cohens_f()
• anova_stats()

First, we need a sample model:

library(sjstats)
data(efc)

# fit linear model
fit <- aov(
c12hour ~ as.factor(e42dep) + as.factor(c172code) + c160age,
data = efc
)

All functions accept objects of class aov or anova, so you can also use model fits from the car-package, which allows fitting Anova’s with different types of sum of squares. Other objects, like lm, will be coerced to anova internally.

The following functions return the effect size statistic as named numeric vector, using the model’s term names.

### Eta Squared

The eta squared is the proportion of the total variability in the dependent variable that is accounted for by the variation in the independent variable. It is the ratio of the sum of squares for each group level to the total sum of squares. It can be interpreted as percentage of variance accounted for by a variable.

For variables with 1 degree of freedeom (in the numerator), the square root of eta squared is equal to the correlation coefficient r. For variables with more than 1 degree of freedom, eta squared equals R2. This makes eta squared easily interpretable. Furthermore, these effect sizes can easily be converted into effect size measures that can be, for instance, further processed in meta-analyses.

Eta squared can be computed simply with:

eta_sq(fit)
#>   as.factor(e42dep) as.factor(c172code)             c160age
#>         0.266114185         0.005399167         0.048441046

### Partial Eta Squared

The partial eta squared value is the ratio of the sum of squares for each group level to the sum of squares for each group level plus the residual sum of squares. It is more difficult to interpret, because its value strongly depends on the variability of the residuals. Partial eta squared values should be reported with caution, and Levine and Hullett (2002) recommend reporting eta or omega squared rather than partial eta squared.

Use the partial-argument to compute partial eta squared values:

eta_sq(fit, partial = TRUE)
#>   as.factor(e42dep) as.factor(c172code)             c160age
#>         0.281257128         0.007876882         0.066495448

### Omega Squared

While eta squared estimates tend to be biased in certain situations, e.g. when the sample size is small or the independent variables have many group levels, omega squared estimates are corrected for this bias.

Omega squared can be simply computed with:

omega_sq(fit)
#>   as.factor(e42dep) as.factor(c172code)             c160age
#>         0.263453157         0.003765292         0.047586841

### Cohen’s F

Finally, cohens_f() computes Cohen’s F effect size for all independent variables in the model:

cohens_f(fit)
#>   as.factor(e42dep) as.factor(c172code)             c160age
#>          0.62555427          0.08910342          0.26689334

## Complete Statistical Table Output

The anova_stats() function takes a model input and computes a comprehensive summary, including the above effect size measures, returned as tidy data frame (as tibble, to be exact):

anova_stats(fit)
#> # A tibble: 4 x 11
#>                  term    df      sumsq     meansq statistic p.value etasq partial.etasq omegasq cohens.f power
#>
#> 1   as.factor(e42dep)     3  577756.33 192585.444   108.786   0.000 0.266         0.281   0.263    0.626  1.00
#> 2 as.factor(c172code)     2   11722.05   5861.024     3.311   0.037 0.005         0.008   0.004    0.089  0.63
#> 3             c160age     1  105169.60 105169.595    59.408   0.000 0.048         0.066   0.048    0.267  1.00
#> 4           Residuals   834 1476436.34   1770.307        NA      NA    NA            NA      NA       NA    NA

Like the other functions, the input may also be an object of class anova, so you can also use model fits from the car package, which allows fitting Anova’s with different types of sum of squares:

anova_stats(car::Anova(fit, type = 3))
#> # A tibble: 5 x 11
#>                  term       sumsq     meansq    df statistic p.value etasq partial.etasq omegasq cohens.f power
#>
#> 1         (Intercept)   26851.070  26851.070     1    15.167   0.000 0.013         0.018   0.012    0.135 0.973
#> 2   as.factor(e42dep)  426461.571 142153.857     3    80.299   0.000 0.209         0.224   0.206    0.537 1.000
#> 3 as.factor(c172code)    7352.049   3676.025     2     2.076   0.126 0.004         0.005   0.002    0.071 0.429
#> 4             c160age  105169.595 105169.595     1    59.408   0.000 0.051         0.066   0.051    0.267 1.000
#> 5           Residuals 1476436.343   1770.307   834        NA      NA    NA            NA      NA       NA    NA

### References

Levine TR, Hullet CR. Eta Squared, Partial Eta Squared, and Misreporting of Effect Size in Communication Research. Human Communication Research 28(4); 2002: 612-625

Tagged: anova, R, rstats

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