[BioC] How to generate an annotation library without CDF file?

[Benilton Carvalho]

To generate an annotation package, you should use the PGF file... and
one alternative for this is the pdInfoBuilder package... but without
further details, it's hard to go on...

benilton

On 15 April 2012 01:40, Shu-wen Huang <shuang at chromatininc.com> wrote:
> Hi benilton,
>
> Our group generated a particular list of probes. It's not available in BioConductor. Do you mean I should try to generate a library from PGF file? Thanks!
>
>
> Sw
>
> -----Original Message-----
> From: Benilton Carvalho [mailto:beniltoncarvalho at gmail.com]
> Sent: Saturday, April 14, 2012 6:29 PM
> To: Shu-wen Huang
> Cc: bioconductor at r-project.org
> Subject: Re: [BioC] How to generate an annotation library without CDF file?
>
> PGFs are given for Gene/Exon ST arrays... and chances are that the package you need is already on BioConductor. (btw, a CDF for such array design is not recommended by Affymetrix themselves)
>
> Check Sections 1 and 4 of the document below:
>
> http://bioconductor.org/packages/release/bioc/vignettes/oligo/inst/doc/primer.pdf
>
> benilton