[BioC] dye-swap and arrayMagic

michael watson (IAH-C) michael.watson at bbsrc.ac.uk
Tue Jul 6 11:53:58 CEST 2004

The dye-swap columns need to be multiplied by -1 if they are log ratios

-----Original Message-----
From: Dr_Gyorffy_Balazs [mailto:zsalab2 at yahoo.com] 
Sent: 06 July 2004 10:35
To: bioconductor at stat.math.ethz.ch
Subject: [BioC] dye-swap and arrayMagic

Hallo everyone!

I have analysed 108 Genepix arrays using the arrayMagic package. However, I have a problem: every second array is a repetition of the previous array with dye-swap (normal: 1, 3, 5, ... dye-swap: 2, 4, 6, ...). How can I correct the logratios output (the writeToFile function) in order to get the correct values for the dye-swapped chips?

Balazs Györffy

Bioconductor mailing list
Bioconductor at stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor

More information about the Bioconductor mailing list