Tuomas Borman

@antagomir

Is there any limitation on how many experiments can be fed to MOFA? I am wondering that if there is no limitation, then there could be for instance 10 different...

That makes the implementation of this more difficult. Although one option could be altexp parameter that takes a vector as input. One additional annoying thing is that you cannot specify...

Wow! You already did that :D

Hopefully the review proceeds soon

Maybe `apply.altexp` parameter to `transformAssay`?

@Insaynoah Could you check this? If apply.altexp=TRUE 1. Do transformation to TreeSE. (just like it does currently) 2. If there are altExps, lapply over them and apply transformation

https://github.com/microbiome/mia/blob/c629462bf92e2c8cd48e878667dbd08a34b23fa1/R/transformCounts.R#L235 It might be that you have to move code from lines 235-258 to internal function. Then call that internal function from the transformAssay(). ``` # In input check, check...

This is useful and often needed. @ake123 can you check? See the comments above ``` tse

`altexp` is ok, so it would be ` tse