I'm currently preprocessing 34 cel files in R for finding differentially expressed genes using various statistical tests. I would like to ask before any statistical interference, which way of nonspecific filtering is optimal for my normalized
Should I use criteria such as variance of standard deviation via
genefilter package, or also filter regarding
present/absent calls ??
Affymetrix platform is HG-U133 plus2.0 array.
Thanks in advance !!!