Free Statistics Help Book
An Interactive Multimedia introductory-level statistics book.
The book features interactive demos, simulations and case studies.
Chapter
Section
ANOVA :  

Unequal Sample Sizes



Prerequisite
ANOVA Designs, Multi-Factor Designs


Learning Objectives
1. State why unequal n can be a problem
2. Define confounding
3. Compute weighted and unweighted means
4. Distinguish between Type I and Type III sums of squares
5. Describe why the cause of the unequal sample sizes makes a difference for the interpretation


The Problem of Confounding


Whether by design, accident, or necessity, the number of subjects in each of the conditions in an experiment may not be equal. For example, the sample sizes for the Obesity and Relationships case study are shown in Table 1. Although the sample sizes were approximately equal, the most subjects were in the Acquaintance/Typical condition. Since n is used to refer to the sample size of an individual group, designs with unequal samples sizes are sometimes referred to as designs with unequal n.

Table 1. Sample Sizes for Obesity and Relationships.

 

Companion Weight
Obese Typical
Relationship Girl Friend 40 42
Acquaintance 40 54



We consider an absurd design to illustrate the main problem caused by unequal n. Suppose an experimenter were interested in the effect of diet and exercise on cholesterol. The sample sizes are shown in Table 2.

Table 2. Sample Sizes for Diet and Exercise.

 

Exercise
Moderate None
Diet Low Fat 5 0
High Fat 0 5



What makes this example absurd, is that there are no subjects in either the Low Fat/No exercise condition or the High Fat/Moderate exercise condition. The (hypothetical) data showing change in cholesterol are shown in Table 3.

Table 3. Data for Diet and Exercise.

 

Exercise
Moderate None Mean
Diet Low Fat -20 0 -25
-25
-30
-35
-15
High Fat 0 -20 -5
6
-10
-6
5
 

Mean -25 -5 -15



The last column shows the mean change in cholesterol for the two Diet conditions whereas the last row shows the mean change for the two Exercise conditions. The value of -15 in the lower-right most cell in the table is the mean of all subjects.


We see from the last column that those on the low-fat diet lowered their cholesterol an average of 25 units whereas those on the high-fat diet lowered theirs by only 5 units. However, there is no way of knowing whether the difference is due to diet or to exercise since every subject in the low-fat condition was in the moderate-exercise condition and every subject in the high-fat condition was in the no-exercise condition. Therefore, Diet and Exercise are completely confounded. The problem with unequal n is that it causes confounding.


Weighted and Unweighted Means


The difference between weighted and unweighted means, a difference critical for understanding how to deal with the confounding resulting from unequal n.


Weighted and unweighted means will be explained using the data shown in Table 4. Here, Diet and Exercise are confounded because 80% of the subjects in the low-fat condition exercised as compared to 20% of those in the high-fat condition. However, there is not complete confounding as there was with the data in Table 3.


The weighted mean for “low fat” is computed as the mean of the low-fat moderate-exercise condition and the low-fat no-exercise mean, weighted in accordance with sample size. To compute a weighted mean, you multiply each mean by its sample size and divide by N, the total number of observations. Since there are four subjects in the low-fat moderate-exercise condition and one subject in the low-fat no-exercise condition, the means are weighted by factors of 4 and 1 as shown below where Mw is the weighted mean.





The weighted mean for the low-fat condition is also the mean of all five scores in this condition. Thus if you ignore the factor “Exercise,” you are implicitly computing weighted means.


The unweighted mean for the low-fat condition (Mu) is simply the mean of the two means.




Table 4. Data for Diet and Exercise with Partial Confounding.

 

Exercise
Moderate None Weighted Mean Unweighted Mean
Diet Low Fat -20 -20 -26 -23.75
-25
-30
-35
M=-27.5 M=-20.0
High Fat -15 6 -4 -8.125
-6
5
-10
M=-15.0 M=-1.25
 

Weighted Mean -25 -5  

Unweighted Mean -21.25 -10.625



One way to evaluate the the main effect of Diet is to comparie the weighted mean for the low-fat diet (-26) with the weighted mean for the high-fat diet (-4). This difference of -22 is called “the effect of diet ignoring exercise” and is misleading since most of the low-fat subjects exercised and most of the high-fat subjects did not. However, the difference between the unweighted means of -15.5 (-23.75 minus -8.25) is not affected by this confounding and is therefore a better measure of the main effect. In short, the weighted means ignore the effects of other variables (exercise in this example) and result in confounding; unweighted means control for the effect of other variables and therefore eliminate the confounding.


Statistical analysis programs use different terms for means that are computed controlling for other effects. SPSS calls them “estimated marginal means” whereas SAS and SAS JMP call them least squares means.


Types of Sums of Squares


The section on Multi-factor ANOVA stated that the sum of squares total was not equal to the sum of the sum of squares for all the other sources of variation when there is unequal n. This is because the confounded sums of squares are not apportioned to any source of variation. For the data in Table 4, the sum of squares for Diet is 390.625, the sum of squares for Exercise is 180.625, and the sum of squares confounded between these two factors is 819.375 (the calculation of this value is beyond the scope of this introductory text). In the ANOVA Summary Table shown in Table 5, this large portion of the sum of squares is not apportioned to any source of variation and represents the “missing” sums of squares. That is, if you add up the sums of squares for Diet, Exercise, D x E, and Error, you get 904.625. If you add the confounded sum of squares of 819.375 to this value you get the total sum of squares of 1722.00. When confounded sums of squares are not apportioned to any source of variation, the sums of squares are called Type III sums of squares. Type III sums of squares are, by far, the most common and if sums of squares are not otherwise labeled, it can safely be assumed that they are Type III.

Table 5. ANOVA Summary Table for Type III SSQ.

Source df SSQ MS F p
Diet 1 390.625 390.625 7.43 0.034
Exercise 1 180.625 180.625 3.423 0.113
D x E 1 15.625 15.625 0.2969 0.605
Error 6 315.750 52.625  

 

Total 9 1722.000  

 

 



When confounded sums of squares are apportioned to sources of variation, the sums of squares are called Type I sums of squares. The order in which the confounded sums of squares is apportioned is determined by the order in which the effects are listed. The first effect gets any sums of squares confounded between it and any of the other effects. The second gets the sums of squares confounded between it and subsequent effects, but not confounded with the first effect, etc. The Type I sums of squares are shown in Table 6. As you can see, with Type I sums of squares, the sum of all sums of squares is the total sum of squares.

Table 6. ANOVA Summary Table for Type I SSQ.

Source df SSQ MS F p
Diet 1 1210.000 390.625 7.43 0.034
Exercise 1 180.625 180.625 3.423 0.113
D x E 1 15.625 15.625 0.2969 0.605
Error 6 315.750 52.625  

 

Total 9 1722.000  

 

 



In Type II sums of squares, sums of squares confounded between main effects is not apportioned to any source of variation whereas sums of squares confounded between main effects and interactions is apportioned to the main effects. In our example, there is no confounding between D x E interaction and either of the main effects. Therefore, the Type II sums of squares are equal to the Type III sums of squares.


Unweighted Mean Analysis


Type III sums of squares are tests of difference in unweighted means. However, there is an alternative method to testing the same hypotheses tested using Type III sums of squares. This method, unweighted means analysis, is computationally simpler than the standard method but is an approximate test rather than an exact test. It is, however, a very good approximation in all but extreme cases. Moreover, it is exactly the same as the traditional test for effects with one degree of freedom. The Analysis Lab uses unweighted means analysis and therefore may not match the results of other computer programs exactly when there is unequal n and the df are greater than one.


Causes of Unequal Samples


None of the methods for dealing with unequal sample sizes are valid if the experimental treatment is the source of the unequal sample sizes. Imagine an experiment seeking to determine whether publicly performing an embarrassing act would affect one’s anxiety about public speaking. In this imaginary experiment, the experimental group is asked to reveal to a group of people the most embarrassing thing they have ever done. The control group is asked to describe what they had at their last meal. Twenty subjects are recruited for the experiment and randomly divided into two equal groups of 10, one for the experimental treatment and one for the control. Following the description, subjects are given an attitude survey concerning public speaking. This seems like a valid experimental design. However, of the 10 subjects in the experimental group, four withdrew from the experiment because they did not wish to publicly describe an embarrassing situation. None of the subjects in the control group withdrew. Even if the data analysis shows a significant effect, it would not be valid to conclude that the treatment had an effect because a likely alternative explanation cannot be ruled out. Namely, subjects who were willing to describe an embarrassing situation differed from those who were not even before the experiment began. Thus, the differential drop-out rate destroyed the random assignment of subjects to conditions, a critical feature of the experimental design. No amount of statistical adjustment can compensate for this flaw.

Copyright 2012