So you say it is better to use RMA in any case? The literature I found is at
best controversy :-D

Andreas

2011/5/9 Michal Okoniewski <michal.okoniewski@fgcz.ethz.ch>

> Affy scanner produces values on two bytes 0-2^16, so if you have after the
> plier summarization values with whole-chip max around 13-15, then you have
> log2 - and they are used in such way as it is easier to interpret fold
> changes.
> Anyway - I think even the creators of plier gave it up and use RMA now :)
> Cheers,
> Michal
>
> On 5/9/11 3:58 PM, "Andreas Heider" <aheider@trm.uni-leipzig.de> wrote:
>
> >Dear bioconductor,
> >I just asked myself if the values returned by justPLIER are log-base 2
> >oder
> >10? Can I change the base? What is the default?
> >
> >Thanks in advance, Andreas Heider
> >
> >       [[alternative HTML version deleted]]
> >
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