František
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There is a lot of discussion in the literature how to properly specify random effects structure. However, one thing that majority of people agree on is that random intercept only models are suboptimal as they lead to poor coverage and inflated type …
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Hi barrychow, What you see in the analysis is a meta-regression with the "culture" corresponding to a dummy-coded predictor. The intercept corresponds to the estimate in the level "1", and the coefficients "2" and "…
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I'm sorry but I don't have any suggestions in this regard.
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Hi Naomi, Currently, you can't see that, unfortunately. You can inspect the random effects variance (which would be an indicator of its contribution) under the "Variance/correlation estimates". If the random effect's variance is essentiall…
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Hi, Unfortunately, the JASP does not contain assumption checks yet. I was planning to expand the module after the current release, so this is definitely something we will be looking into. Cheers, Frantisek
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Hi Philip, thanks for reporting the bug, we will fix it with the next release! Cheers, Frantisek
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Hi Katie, The resulting effect size measure is solely determined by the input. In other words, if you use Cohen's d as the input, the output is going to be on Cohen's d again. If you use correlations as the input, the output is a correlation (I woul…
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Hi Howard, Yes, I can see that as a useful feature indeed (so far, you can obtain the OR by exponentiating the non-response scale output manually--in case someone else comes to this thread later). Thanks for looking into this with me, Frantisek
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Hi Howard, Thanks for catching that out--I haven't used emmeans for quite a bit and didn't know about this. I finally had a bit more time to take a deeper look. Using the following code, it seems like that using regrid (as we do in JASP) helps with …
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Hi Andrew, You can get OR from the contrasts only if you don't use the "Outcome scale" option. Otherwise, the contrast is a difference in the probabilities of those two outcomes. Glad I could help, Frantisek
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Hi Howards, Hmm, that's quite interesting that R produces the output on OR scale (I would expect it to use the specified contrasts by emmeans directly). Also, in JASP we use a combination of the two functions too, i.e., https://github.com/jasp-stats…
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Just to check, did you use the 'emmeans::emmeans' function to create the marginal means object and then the 'emmeans::contrast' function to compute the contrasts? We did explicitly separate the calculations in the underlying implementation to always…
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Dear Andrew, I'm slightly confused about your question now. When you have a factor with two levels, the sum contrast creates (-1, 1) coding for the levels (i.e., contr.sum(2)). In other words, the fixed effect estimate corresponds to half the differ…
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Hi Howard, Thanks for posting the question. I think that the main difference is that you do not compute the contrast on the outcome scale (probabilities) but rather on the latent model scale and then transform it into odds ratios. I.e., under the sp…
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Hi Andrew, The contrast coding can be indeed a bit confusing. We added a more detailed explanation to the help file that summarizes what are the differences and reasons for using the sum contrasts (where the fixed effects are not readily interpretab…
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Hi Jonathan, The prior distributions are weakly informative and should be well-behaved in parameter estimation settings. The module uses the default prior distribution settings of the rstanarm R package which defines normal(location = 0, scale = 2.5…
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This seems to be an issue with the maximum length of R formula -- it cannot be longer than 500 characters. In such a case, I would recommend shortening variable names (e.g., Emotion -> Em, Stimulus orientation -> StOr, etc.). In case that does…
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We resolved this via email with the help of Thomas Debray. I'm attaching the response if other people have a similar question: The I2 statistics you report are OK, they usually represent the I2 of the logit transformed c-statistic (unless no transf…
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Hi Peter, Yes, EJ is indeed right. If you input the Bayesian posterior estimates, you are adding additional information to each study via each t-test's prior distribution. The `frequentist t-test's` Cohen's d is just a summary statistic used as an …
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Hi Fara, Yes, absolutely! (also Fisher's z is usually the best standardized effect size for performing meta-analyses) Cheers, Frantisek
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Hi Stan, Thanks for reaching out! Yes, you are correct about the issues with depend effect sizes. We currently do not have such procedures in JASP but we are working on adding them in the future. Best, Frantisek
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Hi Daiichiro, Yes, that's exactly the way how the contrasts are constructed. Regarding the plot, the visualized points are the raw data aggregated across the random effects specified in "Background data show" field, e.g., participants in …
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Hi Daiichiro, Thanks for reporting the issue. Regarding Q1, the fixed effects estimate summary table shows estimates for the sum coded contrasts -- those are usually not directly interpretable (in comparison to dummy coding) but present a better way…
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Hi, I'm sorry, I'm not really familiar with this type of multilevel model, but I fear that it is not possible in the current JASP implementation. Cheers, Frantisek
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Hi JP, You can definitely plot levels of one variable against the levels of the other variable -- the interaction then looks like a difference in the changes among the levels. Or do you have something else in mind? (And If you could upload an exampl…
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Hi KC, Yes, the Bayesian (Generalized) Mixed Models analysis uses the autoscaled priors from rstanarm (as the analysis provides estimation only and no Bayes factors). We should've described this better in the documentation -- we are planning to make…
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Hi Marijn, Yes, the Bayesian (Generalized) Mixed Models analysis is using the autoscaled priors from rstanarm (as the analysis provides estimation only and no Bayes factors). We should've described this better in the documentation -- we are planing …
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Hi Smiddy, We actually started drafting the paper in December, so we will hopefully have preprint out soon :) Cheers, Frantisek
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Hi Tom, We are currently preparing an article that will provide more guidance on operating the Mixed Effect module and we will definitely include a section about the contrasts settings. The latest release also includes a new example analysis, "…