[Feature Request]: Effect size for Kruskall Wallis and Dunns test (post hoc)

PerPalmgren commented 2 years ago

Description

It would be great if JASP could produce a measure of effect size when running a Kruskal-Wallis test. This is possible in a R package (se below). It would also be nice if the follow up post hoc test (Dunn´s test) could prduce a effect size,

Purpose

No response

Use-case

No response

Is your feature request related to a problem?

Not a problem per see but it is nearly standard today to accompany p-values with effect size.

Is your feature request related to a JASP module?

ANOVA

Describe the solution you would like

Effect size for KS-test is possible in R: https://search.r-project.org/CRAN/refmans/rstatix/html/kruskal_effsize.html. For effect sizes on Dunn´s test I found the following: https://www.researchgate.net/post/How-to-calculate-pairwise-multiple-comparison-tests-effect-sizes-in-R

Describe alternatives that you have considered

No response

Additional context

No response

PerPalmgren commented 1 year ago

Will this be incorporated in 0.17 version?

PerPalmgren commented 1 year ago

Any news on this feature?

PerPalmgren commented 1 year ago

@JohnnyDoorn Do you think effect size for KW-tests and following post hoc tests (Dunn’s) will be available in the next JASP version?

JohnnyDoorn commented 1 year ago

The KW could be an easy implementation, so I'll look into that. Your link to a possible Dunn effect size is not very informative - I didn't see any mention of Dunn's test and what sort of effect size could be used there, or am I mistaken?

PerPalmgren commented 1 year ago

Johnny! Great with ES for KW-tests. I tried to find some proposals for measures of ES for Dunns but without luck🥴. Per

Per J. Palmgren | DC, FRCC, MMedEd, PhD | Associate Professor | Director of doctoral studies Department of Learning, Informatics, Management and Ethics | Karolinska Institutet | Tomtebodavägen 18A | 171 77 Stockholm | Tel. + 46 8 524 85 294<tel:+%2046%208%20524%2085%C2%A0294> @.**@.> | ki.sehttps://eur01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fki.se%2F&data=04%7C01%7Cper.palmgren%40ki.se%7C9f6969aac91f4526542308d875898009%7Cbff7eef1cf4b4f32be3da1dda043c05d%7C0%7C0%7C637388580700328145%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=f6OY6fEm6z0scmnO%2FDhlWRgL%2BujfjA072A2uHaASfNY%3D&reserved=0

Karolinska Institutet – a medical university

28 feb. 2023 kl. 14:11 skrev JohnnyDoorn @.***>:

The KW could be an easy implementation, so I'll look into that. Your link to a possible Dunn effect size is not very informative - I didn't see any mention of Dunn's test and what sort of effect size could be used there, or am I mistaken?

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PerPalmgren commented 1 year ago

Sad to see that this feature was not included in 0.17.2.🥲

JohnnyDoorn commented 1 year ago

If you can find me some relevant literature I'll happily implement it ;-)

PerPalmgren commented 1 year ago

Is the reference mentioned in the bottom of the page provided sufficient? https://rpkgs.datanovia.com/rstatix/reference/kruskal_effsize.html Kruskal-Wallis Effect Size — kruskal_effsizehttps://rpkgs.datanovia.com/rstatix/reference/kruskal_effsize.html rpkgs.datanovia.comhttps://rpkgs.datanovia.com/rstatix/reference/kruskal_effsize.html [X]https://rpkgs.datanovia.com/rstatix/reference/kruskal_effsize.html All the best Per

Karolinska Institutet – a medical university

24 maj 2023 kl. 11:24 skrev Johnny van Doorn @.***>:

If you can find me some relevant literature I'll happily implement it ;-)

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PerPalmgren commented 1 year ago

For the Dunns test maybe applying a Bonferroni correction! https://www.peterstatistics.com/CrashCourse/3-TwoVarUnpair/NomOrd/NomOrd3b.html Nominal vs Ordinal - Part 3b: Post-hoc test (Dunn's test)https://www.peterstatistics.com/CrashCourse/3-TwoVarUnpair/NomOrd/NomOrd3b.html peterstatistics.comhttps://www.peterstatistics.com/CrashCourse/3-TwoVarUnpair/NomOrd/NomOrd3b.html [favicon.ico]https://www.peterstatistics.com/CrashCourse/3-TwoVarUnpair/NomOrd/NomOrd3b.html

Karolinska Institutet – a medical university

24 maj 2023 kl. 11:24 skrev Johnny van Doorn @.***>:

If you can find me some relevant literature I'll happily implement it ;-)

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PerPalmgren commented 1 year ago

Sorry to fast on the last mail on Dunns🤪. Please ignore🙏🏻

Karolinska Institutet – a medical university

24 maj 2023 kl. 11:24 skrev Johnny van Doorn @.***>:

If you can find me some relevant literature I'll happily implement it ;-)

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fernandaperes commented 1 year ago

+1 for this feature request!

I believe that implementing effect sizes for Kruskal-Wallis would be a valuable addition to the software.

If I may provide some references for Kruskal-Wallis effect sizes:

Two effect sizes have been suggested for Kruskal-Wallis test:

Ordinal eta-squared (Tomczak & Tomczak, 2014; Cohen, 2008)
Ordinal epsilon-squared (King et al., 2018; Tomczak & Tomczak, 2014)

In R, ordinal eta-squared can be obtained by the ordinalEtaSquared function from the rcompanion package or by the function rank_eta_squared from the package effectsize. Ordinal epsilon-squared can be obtained by the function epsilonSquared from the rcompanion package or by the function rank_epsilon_squared from the package effectsize.

With respect to effect sizes of pairwise comparisons, the VDA (A of Vargha and Delaney) may be employed (Vargha & Delaney, 2000): https://rdrr.io/cran/rcompanion/man/multiVDA.html It is a common language effect size and can be implemented by the multiVDA function from rcompanion package.

Best regards, Fernanda

References:

Cohen, B. H. (2008). Explaining psychological statistics. John Wiley & Sons.

King, B. M., Rosopa, P. J., & Minium, E. W. (2018). Statistical reasoning in the behavioral sciences. John Wiley & Sons.

Tomczak, M., & Tomczak, E. (2014). The need to report effect size estimates revisited. An overview of some recommended measures of effect size. Trends in sport sciences, 21(1).

Vargha, A., & Delaney, H. D. (2000). A critique and improvement of the CL common language effect size statistics of McGraw and Wong. Journal of Educational and Behavioral Statistics, 25(2), 101-132.

PerPalmgren commented 1 year ago

@fernandaperes Thanks.👍 So, @JohnnyDoorn this will maybe come now😜.

BaggioMarco commented 1 year ago

Hi, I confirm the importance of this request due to the current standards requiring to indicate the effect size for the main effect (Kruskal-Walls Test ) and post hoc (Dunn). Hope it can be integrated in the next release, thanks for your work,

PerPalmgren commented 1 year ago

Hope this will come for next release.

PerPalmgren commented 1 year ago

Is this on its way?

JohnnyDoorn commented 1 year ago

Hi @PerPalmgren,

I am currently wrapping up my own teaching, after that I am planning on tweaking the ANOVA and regression (mostly some additional model metrics, effect sizes, and ability to export model residuals/predictions), and adding effect sizes for these tests is included in that list. So in that broader sense of the word, it is definitely on its way, but it will probably only be part of the JASP spring release.

Cheers, Johnny

richlv commented 11 months ago

There's a quite lengthy discussion on η² for Kruskal Wallis at https://www.researchgate.net/post/Anyone-know-how-to-calculate-eta-squared-for-a-Kruskal-Wallis-analysis , with some disagreement (for example, see the post that starts with "Several articles and textbooks mentioned above likely made errors in formulating η²" - it also references SPSS). If JASP implements η² for K-W, it might be a good idea to document the formula used.

tomtomme commented 10 months ago

@fernandaperes as an overview where some of your requests and related stuff is tracked

[ ] ES for nonparametric tTests https://github.com/jasp-stats/jasp-issues/issues/450
[ ] move ANOVAs Dunn's post hoc to non-parametrics section to be consistent with e.g. RM ANOVA (many closed duplicates in #383)
[ ] ES for ANOVAs interactions and post hocs / contrasts https://github.com/jasp-stats/jasp-issues/issues/1531

@JohnnyDoorn And from this issue left to implement:

[x] ES for Kruskal-Wallis test https://search.r-project.org/CRAN/refmans/rstatix/html/kruskal_effsize.html
[x] ES for Dunns post hoc https://www.researchgate.net/post/How-to-calculate-pairwise-multiple-comparison-tests-effect-sizes-in-R

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