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Repeated measures designs or "Within-Subjects" designs are very important in life sciences and social sciences. Unfortunately, Mathematica's ANOVA package is not able to analyze those designs. It only handles "Between-Subjects" type of analyses.

During my whole research career I haven't been able to use Mathematica to analyze most of the studies I performed, which really is a pity.

In an e-mail exchange I had with WRI's Andy Ross in the beginning of this year he confirmed that I wasn't overlooking built-in functionality.

The question is: is any one aware of third party packages that handle these types of ANOVAs?

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    $\begingroup$ I don't mean to sound like a jerk, but if you had your "whole research career" to build some tools for this in Mathematica why didn't you? Is the algorithm behind it that prohibitive? $\endgroup$
    – Mr.Wizard
    Commented Jul 1, 2012 at 6:32
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    $\begingroup$ @Mr.Wizard have you read the linked article? It's sufficiently complex and error-prone that I preferred to use the other tools that I had readily available (Statistica in my case) instead of trying to come up with something myself. $\endgroup$
    – Sjoerd C. de Vries
    Commented Jul 1, 2012 at 6:58
  • $\begingroup$ Okay, just asking. It went over my head but that didn't surprise me. I guess it really is complex. :^) $\endgroup$
    – Mr.Wizard
    Commented Jul 1, 2012 at 7:00
  • $\begingroup$ Wouldn't the GeneralizedLinearModel be able to handle what ANOVA does, which after all is (more or less) a special form of linear regression? $\endgroup$
    – gwr
    Commented Sep 13, 2016 at 17:30
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    $\begingroup$ @gmr ANOVA's are not used for regression, but are a methodology to compare means of data grouped into categories. However, the cited article describes an alternative approach using GLM. $\endgroup$
    – Sjoerd C. de Vries
    Commented Sep 13, 2016 at 17:38

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Well, it's typical that just when you don't need it anymore (as I switched to a totally different discipline), the required functionality pops up. I found that Vol. 13 (2011) of The Mathematica Journal contains an article about these types of designs, Computing Mixed-Design (Split-Plot) ANOVA. I thought it good to post it here, as I know many people would love to have this.

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  • $\begingroup$ 11 years later, wondering if there's any update to this. For example, is this achievable via [ANOVA[]](reference.wolfram.com/language/ANOVA/ref/ANOVA.html)? Or still mainly just via the linked package? $\endgroup$
    – Sterling
    Commented Oct 9, 2021 at 5:12
  • $\begingroup$ Haven’t checked lately. The ANOVA package still doesn’t seem to have it. There’s an ANOVA ResourceFunction that has the exact same functionality as the package as far as I can see. $\endgroup$
    – Sjoerd C. de Vries
    Commented Oct 10, 2021 at 11:19

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