YANNICK wrote: > Hi BASE2 users! > > I am using BASE 2.11 and have some questions. > I want to calculate Ratios from 2 bioassays organized as following: > - 1st bioassay = control > - 2nd = treatment > Labellings are performed as following: > Cy5= pool of all samples extracts. Same in all arrays (serves for > normalizations between arrays) > Cy3= experimental condition. > > Here are my questions: > - is it possible to perform Rquantile normalization (cf > normalizeBetweenArrays, R Bioconductors)? > - And how to calculate ratios for each reporter? we must calculate > ratios of cy3 intensities between the two bioassays. (e.g. > ch(2)[biaoassay1] / ch(2)[bioassay2]).
The plug-ins that ship with BASE only works with a single bioassay at a time. The desired functionality requires that additional plug-ins are developed. /Nicklas ------------------------------------------------------------------------------ Stay on top of everything new and different, both inside and around Java (TM) technology - register by April 22, and save $200 on the JavaOne (SM) conference, June 2-5, 2009, San Francisco. 300 plus technical and hands-on sessions. Register today. Use priority code J9JMT32. http://p.sf.net/sfu/p _______________________________________________ The BASE general discussion mailing list basedb-users@lists.sourceforge.net unsubscribe: send a mail with subject "unsubscribe" to basedb-users-requ...@lists.sourceforge.net
