Re: [base] import of affymetrix data - which approach

2007-08-10 Thread Nicklas Nordborg
Reha Yildirimman wrote: I have another approach and if that seems ineffective to you please drop me a line! We also had that approach to begin with. However we were a bit worried about database performance since the Affymtrix chips contains a lot probes. Since most tools needed the CEL

Re: [base] get reporter ID from 2 columns

2007-08-10 Thread Nicklas Nordborg
Reha Yildirimman wrote: Hello, when configuring a raw-data-importer plug-in one has to state the column where the reportet ID is given. Is it possible to instead state 2 columns which when merged give the reporter ID ? And if yes how can I add another character like - in between those 2

Re: [base] import of affymetrix data - which approach

2007-08-10 Thread Jari Häkkinen
Hi, The plier and rmaexpress plug-ins calculates the probeset expression values using information from the cel/cdf files. The plugins are presented on the BASE plugin site http://baseplugins.thep.lu.se/wiki/se.lu.thep.affymetrix How the expression values are calculated is presented elsewhere