Nicklas Nordborg wrote: > >> The array design concept was intended to provide a way of checking if >> the right raw data files are linked with right samples/extracts in the >> experiment, and that the right data is analyzed in experiment. It seems >> that it might not be the case for Illumina. >> >> Do you think there is a way to improve this and provide control over >> what gets imported with what design? >> > > One problem is that the raw data files contains no information whatsoever > about > which array design that was used. Do you have any ideas yourself? Given a BGX > file > and two raw data files (one matching and one none-matching) how do you tell > them apart? > I know our lab people is able to trace this somehow, I'll forward the question. > The only thing I can think of is to report an error if the number of skipped > data lines goes above a certain threshold. Any idea about what a good value > for that threshold might be? 10? 100? > Wouldn't a percentage make sense here? If more than say 5% of the Features in a raw data file does not match the design = bgx file, than there is probably an error? This will allow for some changes in the bgx file that then wouldn't require the definition of a new array design.
> Another possibility is to add a check in the experiment overview that compare > the number of features on the array design with the number of raw data spots > in > the raw bioassay. If the difference is too big a warning could be generated. > Would also be a nice solution. best, Kjell ------------------------------------------------------------------------------ Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day trial. Simplify your report design, integration and deployment - and focus on what you do best, core application coding. Discover what's new with Crystal Reports now. http://p.sf.net/sfu/bobj-july _______________________________________________ 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
