Regarding different Affymetrix type (snp and expression) BASE 2.5 has implemented support for something called platform and variants to support different type of chips within a platform (see http://base.thep.lu.se/chrome/site/latest/html/userdoc/platforms/platforms.html). In this case we have Affymetrix as platform and the variants could be 'affymetrix' (for expression chips) and 'snp'. I think the 'affymetrix' variant cannot be changed since it is already used by the core. What variants are required is really up to the plug-in creator but in the current APT plug-in two are needed. I think it is wise to discuss these new features with the BASE core programmers before starting on platforms and variants for APT.
There is a parallel to this with the Illumina platform which we are working on here in Lund. We decided to add the Illumina support as an external plug-in, http://baseplugins.thep.lu.se/wiki/net.sf.basedb.illumina. The Illumina platform also have different variants and the variants required by the plug-in are created as a part of the plug-in installation. The plug-in is not ready yet but you can follow the progress through the plug-in site. We are going to try the Affymetrix snp support of the APT plug-in here and will report our experiences with the Affy snp back to you. We'll probably also have some ideas on platforms and variants for you to when you switch to BASE 2.5. Cheers, Jari ------------------------------------------------------------------------- This SF.net email is sponsored by: Microsoft Defy all challenges. Microsoft(R) Visual Studio 2008. http://clk.atdmt.com/MRT/go/vse0120000070mrt/direct/01/ _______________________________________________ The BASE general discussion mailing list basedb-users@lists.sourceforge.net unsubscribe: send a mail with subject "unsubscribe" to [EMAIL PROTECTED]
