Re: [base] Réplicates in base 2

[Emmanuel Courcelle]

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    Median FG      Formula intensity calculator 2    Mediane  80640 6229   3    Filter: raw('flags') == 0      JEP filter plugin 4    Filtered Mediane  77148 6158   5    Normalization: Median ratio      Normalization: Median ratio 6    Filtered Normalized Mediane  77148 6158   7    Something---      Base1PluginExecuter 8    Something after  77148 0   9 Looks buggy, doesn't it ? did I miss something ? -- Emmanuel COURCELLE [EMAIL PROTECTED] L.I.P.M. (UMR CNRS-INRA 2594/441) tel (33) 5-61-28-54-50 B.P.52627 - 31326 CASTANET TOLOSAN Cedex - FRANCE ------

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