Hi Louise, Maybe you should look into the http://baseplugins.thep.lu.se/wiki/net.sf.basedb.normalizers package for inspiration on how to create a plug-in for your needs.
Jari Nicklas Nordborg wrote: > Louise Donnison wrote: >> Hi >> >> We have some raw bioassays in an experiment and I am trying to work out >> how to use the analysis plugins. >> We can run the Formula intensity calculator Mean FG - Mean BG to create >> a BioAssay set. >> We can run the Filter plugin to filter out flagged values and the JEP >> intensity transformer to set values. >> >> However, what I would like to do is if a spot is flagged (non 0), set >> its value to the mean >> of that spots reporters (flagged 0) across the whole experiment. >> Calculate a mean of the channel 1 and channel2 values >> for each reporter for non flagged reporters. >> >> Is that possible? I have been looking at the >> JEP extra value calculator plugin but I am not sure how I can create >> such a mean using that plugin > > The JEP plug-ins are very simple and doesn't support means or other > aggregated values. They can only work with the data for a single spot at > a time. > > /Nicklas > > ------------------------------------------------------------------------------ > This SF.net email is sponsored by: > SourcForge Community > SourceForge wants to tell your story. > http://p.sf.net/sfu/sf-spreadtheword > _______________________________________________ > 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 ------------------------------------------------------------------------------ This SF.net email is sponsored by: SourcForge Community SourceForge wants to tell your story. http://p.sf.net/sfu/sf-spreadtheword _______________________________________________ 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
