Dear mailing list, is there a straight forward way of deriving present / absent calls or detection p-values from an existing ExpressionSet? The ExpressionSet will have no "se.exprs" or "pval" slots available. Also is there a way to convert in between the two (present/absent and p-value)? Thanks, Andreas [[alternative HTML version deleted]]

No On Tue, Oct 4, 2011 at 9:40 AM, Andreas Heider <aheider at="" trm.uni-leipzig.de=""> wrote: > Dear mailing list, > is there a straight forward way of deriving present / absent calls or > detection p-values from an existing ExpressionSet? The ExpressionSet will > have no "se.exprs" or "pval" slots available. > Also is there a way to convert in between the two (present/absent and > p-value)? > > Thanks, Andreas > > ? ? ? ?[[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >

Dear Andreas, If what you have is an Illumina BeadChip dataset and also you have negative control probes included in your ExpressionSet object, then it will be possible to derive detection p values because Illumina calculates detection p values based on these negative controls. Cheers, Wei On Oct 5, 2011, at 12:40 AM, Andreas Heider wrote: > Dear mailing list, > is there a straight forward way of deriving present / absent calls or > detection p-values from an existing ExpressionSet? The ExpressionSet will > have no "se.exprs" or "pval" slots available. > Also is there a way to convert in between the two (present/absent and > p-value)? > > Thanks, Andreas > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor ______________________________________________________________________ The information in this email is confidential and intend...{{dropped:6}}