[BioC] Reading hundrets of .cel files and QC thereof

[Sean Davis]

On Tuesday 23 January 2007 07:33, Wolfgang Raffelsberger wrote:
> Dear Bioconductors,
>
> I'm preparing for two projects with 200 arrays each (U133+2).
> Currently I use a Fedora (Core 5) Linux Quad AMD Opteron at 16 Go RAM.
> Reading a recent post on this list I guess reading the cel files using
> justRMA() or justGCRMA() won't be the probelm.
> But does have anyone experience if this is sufficient (or how much I'd
> need) to run QC based on fitPLM(), RLE & NUSE or the affyQCReport package ?
> Do you have other suggestions for running QC (besides chopping the
> projects in smaller chunks) ?

Wolfgang,

Give it a try and let us know how it works!  You can probably make 200 copies 
of the same array with different filenames, if you want.  Or download a bunch 
of .CEL files from NCBI GEO.  Take a look at GSE2109, which has 1400 samples 
on the plus2 array, if I remember correctly.

Sean