Emmanuel Courcelle wrote: > Nicklas Nordborg a écrit : >> Emmanuel Courcelle wrote: >> >>> Hello >>> >>> We are trying to create an experiment composed with: >>> >>> -4 slides >>> -3 times each reporter on each slide >>> >>> So, we have up to 12 replicates for each reporter (sometimes less >>> because some flagged spots were filtered out). >>> How to make a final bioassay set with 6158 averaged-spots instead of >>> more than 77000 ? >>> >> >> >> There is no merge plugin available for BASE2. You can try using the >> BASE1 merge plugin which can be found on: >> http://lev.thep.lu.se/trac/baseplugins/wiki/PluginDownload >> >> > OK > So I tried the followng: > > -download the Merge BioAssay plugin > -Install file inside some directory (/usr/local/base2/plugins) > -Upload mergebioassay.base to my base's home directory > -Create a configuration for Base1PluginExecuter > -Enter /my_home/mergebioassay.base in the field: File > -Enter /usr/local/base2/plugins in the filed: Plugin executables path > > -Go to the bioassay Set > -Click the last set (called Filetered Normalized Mediane) > -Run the plugin > > Here what I got (copy-and-paster from the screen, because the export > does not show everything): > * > >> 1 >> <javascript:JoustMenu.toggle(0)> Median FG >> >> Formula intensity calculator >> 2 >> <javascript:JoustMenu.toggle(1)> Mediane >> >> 80640 6229 >> 3 >> <javascript:JoustMenu.toggle(2)> Filter: raw('flags') == 0 >> >> JEP filter plugin >> 4 >> <javascript:JoustMenu.toggle(3)> Filtered Mediane >> >> 77148 6158 >> 5 >> <javascript:JoustMenu.toggle(4)> Normalization: Median ratio >> >> Normalization: Median ratio >> 6 >> <javascript:JoustMenu.toggle(5)> Filtered Normalized Mediane >> >> 77148 6158 >> 7 >> <javascript:JoustMenu.toggle(6)> Something--- >> >> Base1PluginExecuter >> 8 >> <javascript:JoustMenu.toggle(7)> Something after >> >> 77148 0 >> 9 >> > > *Looks buggy, doesn't it ? did I miss something ?
I don't know much about the BASE 1 plugins. What do you think is buggy? /Nicklas ------------------------------------------------------------------------- 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]
