Hi,
Aldex() works fine, I think. I used a t test for pre and post treatment. I have all the data from rab.all and ending with wi.eBH. I saw the manual says to run effect first before plotting. Like I mentioned, I have a pre and post data -- and 4 replicates each. When I run my clr data as x in aldex.effect() I first get an error:
x.effect <- aldex.effect(x, verbose=TRUE, include.sample.summary=FALSE, useMC=FALSE, CI=FALSE, glm.conds=NULL)
no applicable method for @ applied to an object of class "data.frame"
So, I tried to pull my data into an S4 using:
MyMatrix<-setClass("MyMatrix",slots = list(conds = "matrix"))
my_matrix_instance <- MyMatrix(conds = x)
x.effect <- aldex.effect(my_matrix_instance, verbose=TRUE, include.sample.summary=FALSE, useMC=FALSE, CI=FALSE, glm.conds=NULL)
Now I get an error, please provide a binary condition vector.
I am wondering what else I can try? Or is there something that I missed?
Thank you.