Hi everyone! I have data consisting of several response variables and several explanatory variables. I wish to do a permanova on this using the vegan library and the adonis() function. However, my data had several missing values in it. In order to 'fix' this I used the mice() function from the mice library to make 5 imputations for all the missing values. To do analysis on the 5 datasets with different imputed values, the mice library includes the with.mids() function in which you can call the mice object and calculate a model for all the 5 datasets. The results from these analysis can later on be pooled with the pool() function from the mice library.
The problem I have is that I am not sure how to include a permanova (with the adonis() function) as an expression in the with.mids() function. In order to use the mice() function and calculate multiple imputations I needed one dataframe with all of my response and explanatory variables. In order to use the adonis() function (I think) I need a separate dataframe with my response variables and a separate dataframe with my explanatory variables. Does anyone know how to use the output from a multiple imputation by chained equations (mice) to do a permanova? I hope my question is clear, and if anyone has any ideas or suggestions, your help would be greatly appreciated. Thanks! -- View this message in context: http://r.789695.n4.nabble.com/permanova-on-MICE-object-tp2318342p2318342.html Sent from the R help mailing list archive at Nabble.com. ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.