[BioC] Human Affymetrix Exon microarrays

Ernest Turro ernest.turro at imperial.ac.uk
Tue Oct 26 16:10:19 CEST 2010


Hi,

You might want to try my R package mmbgx. The package includes pre-defined probe-probeset mappings obtained from X:Map, which makes it too big for Bioconductor (135MB). I will adapt it to work with xmapcore, though, and then submit it to Bioconductor. I thought it might be useful to some of you in the meantime. It's available from http://bgx.org.uk/software/mmbgx.html .

Ernest

On 3 Aug 2010, at 08:23, Tim Yates wrote:

> Exonmap has been deprecated in favour of xmapcore
> 
> http://www.bioconductor.org/packages/release/bioc/html/xmapcore.html
> 
> It still requires a MySQL database be installed locally, but no longer
> requires you to install the Ensembl database as well
> 
> Tim
> 
> 
> On 02/08/2010 22:04, "Bhatti, Gaurav" <gbhatti at med.wayne.edu> wrote:
> 
>> Hey
>> Try exonmap. It involves installation of MySQL. If you don't want to do that
>> then try aroma.affymetrix. They have a very comprehensive website
>> http://www.aroma-project.org/
>> 
>> Gaurav Bhatti
>> 
>> -----Original Message-----
>> From: bioconductor-bounces at stat.math.ethz.ch
>> [mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of Jinyan Huang
>> Sent: Monday, August 02, 2010 4:44 PM
>> To: Bioconductor mailing list
>> Subject: [BioC] Human Affymetrix Exon microarrays
>> 
>> Hi all,
>> 
>> Do you have some packages recommend for Human Affymetrix Exon 1.0 st
>> microarrays?
>> 
>> Thanks.
>> 
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