[BioC] makepackage of affy's 100K and 500K SNP chip

[Benilton Carvalho]

Hi Jacob,

although the documentation is not ready yet (for this reason you can 
contact me directly), oligo and makePlatformDesign can handle both 100K 
and 500K SNP chips (provided that you have the sequence and annotation 
files).

at this point, you need to build the environment using the function:

> makePDpackage(CDF_file,probe_fasta_file,annot_file,type="SNP")

after installing the package created from the step above, you can read 
your CEL files using:

> data = read.celfiles(list.celfiles())

kind regards,
benilton

On Thu, 27 Oct 2005, Zhang, Jacob wrote:

> Hello, bioconductor developers:
>
> Are there any one working on to make   bioconductor able to read affy's
> 100K and 500K SNP chips?
>
> I tried make.cdf.packages() in Suse, it worked on 10K arrays, but failed
> on later type of arrays.  The error info is:  bioconductor just can't
> handle the chip type right now.
>
> So can somebody work on that to make it available for public or if not
> for public right now, can somebody make an R package for me to install
> the cdf packages of 100K and 500K cdf  files   on my Suse and/or window
> machines?
>
> Thanks,
>
> Jacob
>
>
>
> This email message, including any attachments, is for the so...{{dropped}}
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
>