[BioC] [Re] Filtering by Fold Change

[peter robinson]

Thanks to all who have sent comments and suggestions. I would like to ask one 
more question. I am doing the filtering to prepare a dataset for some several 
class discovery methods that blow up with relatively large datasets. I have 
about 60 tumor samples coming from 7 known biological classes, but comparing 
the means of these groups to look at fold change would bias the method. 
Assuming intersample normalization is it justified to compare the overall 
highest with the overall lowest as a fold change measure or is there a better 
way of doing this?

Thanks

Peter