I'm using inSilicoMerging/inSilicoDb R packages with 5 GEO datasets, GENENORM and BMC methods were fast and fine but with the same type of script COMBAT and XPN have been running over a week, I think they are stuck somewhere consuming CPU, are the running times of these two methods so long? or am I doing something wrong? Any help is welcome! Thanks a lot in advance and thanks a lot for developing such a useful set of resources, I really enjoy them.
Load pre-computed GEO RData objects
eset <- list(GEO1, GEO2, GEO3, GEO4, GEO5)
eset_COMBAT <- merge(eset, method="COMBAT")