[BioC] Oneclass SAM analysis

[Brooke-Powell, Elizabeth]

Jianping,

Thank you for getting back to me, I do set all of the array column headers
to 1 as all of the biological comparisons are the same in the same ratio
orientation. It has to do with the number of columns of data in total on the
worksheet, it only likes odd numbers of arrays.

Liz


-----Original Message-----
From: Jianping Jin [mailto:jjin at email.unc.edu] 
Sent: Friday, January 05, 2007 8:25 AM
To: Brooke-Powell, Elizabeth; bioconductor at stat.math.ethz.ch
Subject: Re: [BioC] Oneclass SAM analysis

Hi Elizabeth,

Did you set every measurement equal to 1s (not 1s and 2s)? As I understand 
one class analysis tests whether the mean gene expression across all 
replicates differs from zero. There is no any group comparison involved. If 
you were trying to do groups 1 and 2 comparison you probably need a 
"two-class" test.

hope this helps

Jianping