This page offers structured overviews of one or more selected methods. Add additional methods for comparisons (max. of 3) by clicking on the dropdown button in the righthand column. To practice with a specific method click the button at the bottom row of the table
Two way ANOVA
Marginal Homogeneity test / StuartMaxwell test
$z$ test for the difference between two proportions
You cannot compare more than 3 methods
Independent/grouping variables
Independent variable
Independent/grouping variable
Two categorical, the first with $I$ independent groups and the second with $J$ independent groups ($I \geqslant 2$, $J \geqslant 2$)
2 paired groups
One categorical with 2 independent groups
Dependent variable
Dependent variable
Dependent variable
One quantitative of interval or ratio level
One categorical with $J$ independent groups ($J \geqslant 2$)
One categorical with 2 independent groups
Null hypothesis
Null hypothesis
Null hypothesis
ANOVA $F$ tests:
H_{0} for main and interaction effects together (model): no main effects and interaction effect
H_{0} for independent variable A: no main effect for A
H_{0} for independent variable B: no main effect for B
H_{0} for the interaction term: no interaction effect between A and B
Like in one way ANOVA, we can also perform $t$ tests for specific contrasts and multiple comparisons. This is more advanced stuff.
H_{0}: for each category $j$ of the dependent variable, $\pi_j$ for the first paired group = $\pi_j$ for the second paired group.
Here $\pi_j$ is the population proportion in category $j.$
H_{0}: $\pi_1 = \pi_2$
Here $\pi_1$ is the population proportion of 'successes' for group 1, and $\pi_2$ is the population proportion of 'successes' for group 2.
Alternative hypothesis
Alternative hypothesis
Alternative hypothesis
ANOVA $F$ tests:
H_{1} for main and interaction effects together (model): there is a main effect for A, and/or for B, and/or an interaction effect
H_{1} for independent variable A: there is a main effect for A
H_{1} for independent variable B: there is a main effect for B
H_{1} for the interaction term: there is an interaction effect between A and B
H_{1}: for some categories of the dependent variable, $\pi_j$ for the first paired group $\neq$ $\pi_j$ for the second paired group.
H_{1} two sided: $\pi_1 \neq \pi_2$
H_{1} right sided: $\pi_1 > \pi_2$
H_{1} left sided: $\pi_1 < \pi_2$
Assumptions
Assumptions
Assumptions
Within each of the $I \times J$ populations, the scores on the dependent variable are normally distributed
The standard deviation of the scores on the dependent variable is the same in each of the $I \times J$ populations
For each of the $I \times J$ groups, the sample is an independent and simple random sample from the population defined by that group. That is, within and between groups, observations are independent of one another
Equal sample sizes for each group make the interpretation of the ANOVA output easier (unequal sample sizes result in overlap in the sum of squares; this is advanced stuff)
Sample of pairs is a simple random sample from the population of pairs. That is, pairs are independent of one another
Sample size is large enough for $z$ to be approximately normally distributed. Rule of thumb:
Significance test: number of successes and number of failures are each 5 or more in both sample groups
Regular (large sample) 90%, 95%, or 99% confidence interval: number of successes and number of failures are each 10 or more in both sample groups
Plus four 90%, 95%, or 99% confidence interval: sample sizes of both groups are 5 or more
Group 1 sample is a simple random sample (SRS) from population 1, group 2 sample is an independent SRS from population 2. That is, within and between groups, observations are independent of one another
Test statistic
Test statistic
Test statistic
For main and interaction effects together (model):
Note: mean square error is also known as mean square residual or mean square within.
Computing the test statistic is a bit complicated and involves matrix algebra. Unless you are following a technical course, you probably won't need to calculate it by hand.
$z = \dfrac{p_1  p_2}{\sqrt{p(1  p)\Bigg(\dfrac{1}{n_1} + \dfrac{1}{n_2}\Bigg)}}$
Here $p_1$ is the sample proportion of successes in group 1: $\dfrac{X_1}{n_1}$,
$p_2$ is the sample proportion of successes in group 2: $\dfrac{X_2}{n_2}$,
$p$ is the total proportion of successes in the sample: $\dfrac{X_1 + X_2}{n_1 + n_2}$,
$n_1$ is the sample size of group 1, and $n_2$ is the sample size of group 2.
Note: we could just as well compute $p_2  p_1$ in the numerator, but then the left sided alternative becomes $\pi_2 < \pi_1$, and the right sided alternative becomes $\pi_2 > \pi_1.$
Pooled standard deviation
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$
\begin{aligned}
s_p &= \sqrt{\dfrac{\sum\nolimits_{subjects} (\mbox{subject's score}  \mbox{its group mean})^2}{N  (I \times J)}}\\
&= \sqrt{\dfrac{\mbox{sum of squares error}}{\mbox{degrees of freedom error}}}\\
&= \sqrt{\mbox{mean square error}}
\end{aligned}
$


Sampling distribution of $F$ if H_{0} were true
Sampling distribution of the test statistic if H_{0} were true
Find $p$ value corresponding to observed $X^2$ and check if it is equal to or smaller than $\alpha$
Two sided:
Check if $z$ observed in sample is at least as extreme as critical value $z^*$ or
Find two sided $p$ value corresponding to observed $z$ and check if it is equal to or smaller than $\alpha$
Right sided:
Check if $z$ observed in sample is equal to or larger than critical value $z^*$ or
Find right sided $p$ value corresponding to observed $z$ and check if it is equal to or smaller than $\alpha$
Left sided:
Check if $z$ observed in sample is equal to or smaller than critical value $z^*$ or
Find left sided $p$ value corresponding to observed $z$ and check if it is equal to or smaller than $\alpha$
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Approximate $C\%$ confidence interval for $\pi_1  \pi_2$


Regular (large sample):
$(p_1  p_2) \pm z^* \times \sqrt{\dfrac{p_1(1  p_1)}{n_1} + \dfrac{p_2(1  p_2)}{n_2}}$
where the critical value $z^*$ is the value under the normal curve with the area $C / 100$ between $z^*$ and $z^*$ (e.g. $z^*$ = 1.96 for a 95% confidence interval)
With plus four method:
$(p_{1.plus}  p_{2.plus}) \pm z^* \times \sqrt{\dfrac{p_{1.plus}(1  p_{1.plus})}{n_1 + 2} + \dfrac{p_{2.plus}(1  p_{2.plus})}{n_2 + 2}}$
where $p_{1.plus} = \dfrac{X_1 + 1}{n_1 + 2}$, $p_{2.plus} = \dfrac{X_2 + 1}{n_2 + 2}$, and the critical value $z^*$ is the value under the normal curve with the area $C / 100$ between $z^*$ and $z^*$ (e.g. $z^*$ = 1.96 for a 95% confidence interval)
Effect size
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Proportion variance explained $R^2$:
Proportion variance of the dependent variable $y$ explained by the independent variables and the interaction effect together:
$$
\begin{align}
R^2 &= \dfrac{\mbox{sum of squares model}}{\mbox{sum of squares total}}
\end{align}
$$
$R^2$ is the proportion variance explained in the sample. It is a positively biased estimate of the proportion variance explained in the population.
Proportion variance explained $\eta^2$:
Proportion variance of the dependent variable $y$ explained by an independent variable or interaction effect:
$$
\begin{align}
\eta^2_A &= \dfrac{\mbox{sum of squares A}}{\mbox{sum of squares total}}\\
\\
\eta^2_B &= \dfrac{\mbox{sum of squares B}}{\mbox{sum of squares total}}\\
\\
\eta^2_{int} &= \dfrac{\mbox{sum of squares int}}{\mbox{sum of squares total}}
\end{align}
$$
$\eta^2$ is the proportion variance explained in the sample. It is a positively biased estimate of the proportion variance explained in the population.
Proportion variance explained $\omega^2$:
Corrects for the positive bias in $\eta^2$ and is equal to:
$$
\begin{align}
\omega^2_A &= \dfrac{\mbox{sum of squares A}  \mbox{degrees of freedom A} \times \mbox{mean square error}}{\mbox{sum of squares total} + \mbox{mean square error}}\\
\\
\omega^2_B &= \dfrac{\mbox{sum of squares B}  \mbox{degrees of freedom B} \times \mbox{mean square error}}{\mbox{sum of squares total} + \mbox{mean square error}}\\
\\
\omega^2_{int} &= \dfrac{\mbox{sum of squares int}  \mbox{degrees of freedom int} \times \mbox{mean square error}}{\mbox{sum of squares total} + \mbox{mean square error}}\\
\end{align}
$$
$\omega^2$ is a better estimate of the explained variance in the population than
$\eta^2$. Only for balanced designs (equal sample sizes).
Proportion variance explained $\eta^2_{partial}$:
$$
\begin{align}
\eta^2_{partial\,A} &= \frac{\mbox{sum of squares A}}{\mbox{sum of squares A} + \mbox{sum of squares error}}\\
\\
\eta^2_{partial\,B} &= \frac{\mbox{sum of squares B}}{\mbox{sum of squares B} + \mbox{sum of squares error}}\\
\\
\eta^2_{partial\,int} &= \frac{\mbox{sum of squares int}}{\mbox{sum of squares int} + \mbox{sum of squares error}}
\end{align}
$$


ANOVA table
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Equivalent to
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Equivalent to
OLS regression with two categorical independent variables and the interaction term, transformed into $(I  1)$ + $(J  1)$ + $(I  1) \times (J  1)$ code variables.
Is the average mental health score different between people from a low, moderate, and high economic class? And is the average mental health score different between men and women? And is there an interaction effect between economic class and gender?
Subjects are asked to taste three different types of mayonnaise, and to indicate which of the three types of mayonnaise they like best. They then have to drink a glass of beer, and taste and rate the three types of mayonnaise again. Does drinking a beer change which type of mayonnaise people like best?
Is the proportion of smokers different between men and women? Use the normal approximation for the sampling distribution of the test statistic.
SPSS
SPSS
SPSS
Analyze > General Linear Model > Univariate...
Put your dependent (quantitative) variable in the box below Dependent Variable and your two independent (grouping) variables in the box below Fixed Factor(s)
Put the two paired variables in the boxes below Variable 1 and Variable 2
Under Test Type, select the Marginal Homogeneity test
SPSS does not have a specific option for the $z$ test for the difference between two proportions. However, you can do the chisquared test instead. The $p$ value resulting from this chisquared test is equivalent to the two sided $p$ value that would have resulted from the $z$ test. Go to:
Analyze > Descriptive Statistics > Crosstabs...
Put your independent (grouping) variable in the box below Row(s), and your dependent variable in the box below Column(s)
Click the Statistics... button, and click on the square in front of Chisquare
Continue and click OK
Jamovi
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Jamovi
ANOVA > ANOVA
Put your dependent (quantitative) variable in the box below Dependent Variable and your two independent (grouping) variables in the box below Fixed Factors

Jamovi does not have a specific option for the $z$ test for the difference between two proportions. However, you can do the chisquared test instead. The $p$ value resulting from this chisquared test is equivalent to the two sided $p$ value that would have resulted from the $z$ test. Go to:
Frequencies > Independent Samples  $\chi^2$ test of association
Put your independent (grouping) variable in the box below Rows, and your dependent variable in the box below Columns