[BioC] vsn2 bug?

[Tobias Straub]

Dear all,

with the upgrade to bioc 1.5.0 I am facing vsn2.
as already discussed in an older thread there are calculation  
differences. however, in my dataset(s) I get a massive outlier  
comparing the array means after normalization with old vsn and vsn2.

scatterplot here: http://server7.pictiger.com/img/198354/other/vsn- 
bioc.png

my data are six replicates of dual color tiling microarray (193290  
spots), i.e. i pass a 193290 x 12 matrix to vsn.

i guess that's a bug, is it?

Tobias


======================================================================
Dr. Tobias Straub         Adolf-Butenandt-Institute, Molecular Biology
tel: +49-89-2180 75 439         Schillerstr. 44, 80336 Munich, Germany