Hi : I recently uploaded a HGU 133A cel file and generated the image file using te AffyBatch method. I had the following questions. 1. What is the scaling on the image ( I got 700 on the X and the Y) ? How is this scaling done ? 2. How do i turn off the log scaling? Thanks Shyam

if ab is an AffyBatch object you can type image(ab,transfo=NULL) ## or image(ab,tranfo=function(x) x) to see all arrays in the batch in linear scale. alternatlvely, you can type image(ab[[i])) to see array i. ab[[i]] is a Cel object (a lower level class). image(ab[[i]]) calls the imaging function for Cels. image(ab) is a wrapper for batches, that include the log as the tranformation. log is more popular than linear so, on average, it saves keystrokes. On Fri, 14 Feb 2003, Sundaram, Shyam (NIH/CIT) wrote: > Hi : > I recently uploaded a HGU 133A cel file and generated the image file using > te AffyBatch method. I had the following questions. > > 1. What is the scaling on the image ( I got 700 on the X and the Y) ? How is > this scaling done ? > 2. How do i turn off the log scaling? > > Thanks > Shyam > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor >