[open] Bayesian ANOVA and nuisance variables in JASP
After several years of sticking to SPSS-based ANOVA, I'm just starting to grapple with Bayes (using JASP) so apologies for possibly silly questions below...
Within a multi-factorial design, I have factor A that gives a significant main effect (e.g. p=.009) in the traditional repeated measures ANOVA, but BF10 in favour of the null (e.g. .31) in the Bayesian versions using JASP. When I label one of the other (strongly supported) factors (factor in the design as 'nuisance', factor A is then supported (e.g. BF10 = 6.15). The factor I'm labeling as nuisance here is of less interest than factor A, but it isn't of zero interest, so I'm not sure if and when its appropriate to do so.
It would also be useful to understand more clearly why factor B is influencing the comparison of the factor A model vs. the null (when the two don't interact) - this makes me less confident about interpreting any factor's model in the context of a multi-factorial design if its potentially going to be obscured by other factors in the design.
I've seen this with other data sets too, so any help appreciated!