Analysis of variance Totally Explained

Everything about Anova totally explained

In statistics, analysis of variance (ANOVA) is a collection of statistical models, and their associated procedures, in which the observed variance is partitioned into components due to different explanatory variables. The initial techniques of the analysis of variance were developed by the statistician and geneticist R. A. Fisher in the 1920s and 1930s, and is sometimes known as Fisher's ANOVA or Fisher's analysis of variance, due to the use of Fisher's F-distribution as part of the test of statistical significance.

Overview

There are three conceptual classes of such models:

Fixed-effects models assumes that the data came from normal populations which may differ only in their means. (Model 1)
Random effects models assume that the data describe a hierarchy of different populations whose differences are constrained by the hierarchy. (Model 2)
Mixed-effect models describe situations where both fixed and random effects are present. (Model 3)

In practice, there are several types of ANOVA depending on the number of treatments and the way they're applied to the subjects in the experiment:

One-way ANOVA is used to test for differences among two or more independent groups. Typically, however, the One-way ANOVA is used to test for differences among at least three groups, since the two-group case can be covered by a T-test (Gossett, 1908). When there are only two means to compare, the T-test and the F-test are equivalent; the relation between ANOVA and

t

is given by

F = t^2

One-way ANOVA for repeated measures is used when the subjects are subjected to repeated measures; this means that the same subjects are used for each treatment. Note that this method can be subject to carryover effects.

Factorial ANOVA is used when the experimenter wants to study the effects of two or more treatment variables. The most commonly used type of factorial ANOVA is the 2×2 (read: two by two) design, where there are two independent variables and each variable has two levels or distinct values. Factorial ANOVA can also be multi-level such as 3×3, etc. or higher order such as 2×2×2, etc. but analyses with higher numbers of factors are rarely done because the calculations are lengthy and the results are hard to interpret.

When one wishes to test two or more independent groups subjecting the subjects to repeated measures, one may perform a factorial mixed-design ANOVA, in which one factor is independent and the other is repeated measures. This is a type of mixed effect model.

Multivariate analysis of variance (MANOVA) is used when there's more than one dependent variable.

Models

Fixed-effects models

The fixed-effects model of analysis of variance applies to situations in which the experimenter applies several treatments to the subjects of the experiment to see if the response variable values change. This allows the experimenter to estimate the ranges of response variable values that the treatment would generate in the population as a whole.

Random-effects models

Random effects models are used when the treatments are not fixed. This occurs when the various treatments (also known as factor levels) are sampled from a larger population. Because the treatments themselves are random variables, some assumptions and the method of contrasting the treatments differ from ANOVA model 1.
Most random-effects or mixed-effects models are not concerned with making inferences concerning the particular sampled factors. For example, consider a large manufacturing plant in which many machines produce the same product. The statistician studying this plant would have very little interest in comparing the three particular machines to each other. Rather, inferences that can be made for all machines are of interest, such as their variability and the overall mean.

Assumptions

Independence of cases - this is a requirement of the design.

Normality - the distributions in each of the groups are normal.

Equal variances or homoscedasticity - the variance of data in groups should be the same. Levene's test for homogeneity of variances is typically used to confirm homoscedasticity. The Kolmogorov-Smirnov or the Shapiro-Wilk test may be used to confirm normality. Some authors claim that the F-test is unreliable if there are deviations from normality (Lindman, 1974) while others claim that the F-test is robust (Ferguson & Takane, 2005, pp.261-2). The Kruskal-Wallis test is a nonparametric alternative which doesn't rely on an assumption of normality.
These together form the common assumption that the errors are independently, identically, and normally distributed for fixed effects models, or:
ť

varepsilon 	hicksim N(0, sigma^2).,

ANOVA models 2 and 3 have more complex assumptions about the expected value and variance of the residuals since the factors themselves may be drawn from a population.

Logic of ANOVA

Partitioning of the sum of squares

The fundamental technique is a partitioning of the total sum of squares into components related to the effects used in the model. For example, we show the model for a simplified ANOVA with one type of treatment at different levels. ť

SS_

, n_T = total number of cases

to the F-distribution with I-1,n_T degrees of freedom. Using the F-distribution is a natural candidate because the test statistic is the quotient of two mean sums of squares which have a chi-square distribution.

ANOVA on ranks

As first suggested by Conover and Iman in 1981, in many cases when the data don't meet the assumptions of ANOVA, one can replace each original data value by its rank from 1 for the smallest to N for the largest, then run a standard ANOVA calculation on the rank-transformed data. "Where no equivalent nonparametric methods have yet been developed such as for the two-way design, rank transformation results in tests which are more robust to non-normality, and resistant to outliers and non-constant variance, than is ANOVA without the transformation." (Helsel & Hirsch, 2002, Page 177). However Seaman et al. (1994) noticed that the rank transformation of Conover and Iman (1981) isn't appropriate for testing interactions among effects in a factorial design as it can cause an increase in Type I error (alpha error). Furthermore, if both main factors are significant there's little power to detect interactions.
A variant of rank-transformation is 'quantile normalization' in which a further transformation is applied to the ranks such that the resulting values have some defined distribution (often a normal distribution with a specified mean and variance). Further analyses of quantile-normalized data may then assume that distribution to compute significance values.

Conover, W. J., Iman, R. L. (1981). Rank transformations as a bridge between parametric and nonparametric statistics. American Statistician, 35, 124-129. (External Link

) (External Link

)

Helsel, D.R. and R. M. Hirsch, 2002. Statistical Methods in Water Resources: Techniques of Water Resourses Investigations, Book 4, chapter A3. U.S. Geological Survey. 522 pages.(External Link

)

Seaman, J. W., Walls, S. C., Wide, S.E. and Jaeger, R.G.(1994) Caveat emptor: rank transform methods and interactions. Trends Ecol. Evol. 9, 261-263.

Effect size measures

partial η2: ť small = 0.01

medium = 0.06 ť large = 0.14

Source for measure was taken from the following article in the data analysis section.

Kittler, J. E., Menard, W., & Phillips, K., A. (2007). Weight concerns in individuals with body dysmorphic disorder. Eating Behaviors, 8, 115-120. η2 Cohen's f

Examples

Group A is given vodka, Group B is given gin, and Group C is given a placebo. All groups are then tested with a memory task. A one-way ANOVA can be used to assess the effect of the various treatments (that is, the vodka, gin, and placebo).
Group A is given vodka and tested on a memory task. The same group is allowed a rest period of five days and then the experiment is repeated with gin. The procedure is repeated using a placebo. A one-way ANOVA with repeated measures can be used to assess the effect of the vodka versus the impact of the placebo.
In an experiment testing the effects of expectations, subjects are randomly assigned to four groups:

expect vodka-receive vodka

expect vodka-receive placebo

expect placebo-receive vodka

expect placebo-receive placebo (the last group is used as the control group) Each group is then tested on a memory task. The advantage of this design is that multiple variables can be tested at the same time instead of running two different experiments. Also, the experiment can determine whether one variable affects the other variable (known as interaction effects). A factorial ANOVA (2×2) can be used to assess the effect of expecting vodka or the placebo and the actual reception of either.

History

Ronald Fisher first used variance in his 1918 paper The Correlation Between Relatives on the Supposition of Mendelian Inheritance. His first application of the analysis of variance was published in 1921. Analysis of variance became widely known after being included in Fisher's 1925 book Statistical Methods for Research Workers.

Further Information

Get more info on 'Anova'.

External Link Exchanges

Do you know how hard it is to get a link from a large encyclopaedia? Well we're different and will prove it. To get a link from us just add the following HTML to your site on a relevant page:

<a href="http://analysis_of_variance.totallyexplained.com">Analysis of variance Totally Explained</a>

Then simply click through this link from your web page. Our crawlers will verify your link, extract the title of your web page and instantly add a link back to it. If you like you can remove the words Totally Explained and embed the link in article text.
As long as your link remains in place, we'll keep our link to you right here. Please play fair - our crawlers are watching. Your site must be closely related to this one's topic. Any kind of spamming, dubious practises or removing the link will result in your link from us being dropped and, potentially, your whole site being banned.