[BioC] called genes after SAM anaylsis

M a r c e l benco81 at hotmail.com
Wed Nov 2 16:33:11 CET 2005


Hi there!

My aim was to get about 100 called genes out of the sam analysis which I 
have achieved doing this:

>sam9 <- sam(filtered, cl, delta=0.9, rand=2)

the delta of 0.9. gives me 120 Called genes:

>sam9
SAM Analysis for the Two-Class Unpaired Case Assuming Unequal Variances

  Delta      p0   False  Called     FDR
  0.900   0.570   8.920 120.000   0.042

and I now want to get all the Called genes to perform further anaylsis 
(heatmap and so on). how can I do that?

I´ve tried several things like:

called <- sam9$Called

but with no success.

Thanks to everyone!

cheers,
gregor



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