Johan, brilliant, I had a strong feeling there would be a way to do it (I have faith in BASE). will check that out tomorrow.
thanks for putting the merging plugins up too. much appreciated/tusen tack! Johan Enell writes: > Missed to answer you other questions... > > You use the gene filter "In # of Assays" > > Exampel: > You have 4 assays and you want to filter out the spots with ratio > greater then 2 in at least 3 assays. > > You need two criterias for this. The spot filter "ratio > 2" and the and > the gene filter "In # Assays > 2" > > /Johan > > > Bob MacCallum wrote: > > Hi all, > > > > In the analysis steps part of BASE 1.2.x, is there a way to create a > > reporter > > list such that X out of Y assays satisfy some filter condition, > > where 1 < X < Y ? > > > > I already know how to do it where X=1 or X=Y. For example: > > > > 1. Reporters where at least one assay has a twofold change > > Filter on "ratio not between 0.5, 2", create reporter list R with results, > > then filter original set on "reporter list present in R". > > > > 2. Reporters where *all* assays have max intensity >= 100: > > Filter on "max(Ch1,Ch2) < 100", create reporter list S with results, > > then filter original set on "reporter list absent in S". > > > > Quite often you want to filter somewhere in between, i.e. at least half of > > the > > assays should show X-fold changes, or whatever. > > > > It would not be hard to write a plugin to do this, but I haven't written > > any > > plugins yet. So I wondered if there were any GUI tricks I had missed. > > Failing that I'll write a pseudo-plugin (a script which takes a custom BASE > > file and dumps a reporter list) and worry about configuring it as a plugin > > at > > a later date. > > > > Also, if anyone has an 'averaging over replicates' plugin (based on a > > specified sample annotation), I would be very grateful. Installing such a > > plugin would help me figure out how to write one. > > > > cheers, > > Bob. > > > > > > > ------------------------------------------------------------------------- > Take Surveys. Earn Cash. Influence the Future of IT > Join SourceForge.net's Techsay panel and you'll get the chance to share your > opinions on IT & business topics through brief surveys -- and earn cash > http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV > _______________________________________________ > The BASE general discussion mailing list > basedb-users@lists.sourceforge.net > unsubscribe: send a mail with subject "unsubscribe" to > [EMAIL PROTECTED] -- Bob MacCallum | VectorBase Developer | Kafatos/Christophides Groups | Division of Cell and Molecular Biology | Imperial College London | Phone +442075941945 | Email [EMAIL PROTECTED] ------------------------------------------------------------------------- Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT & business topics through brief surveys -- and earn cash http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV _______________________________________________ The BASE general discussion mailing list basedb-users@lists.sourceforge.net unsubscribe: send a mail with subject "unsubscribe" to [EMAIL PROTECTED]
