Dear All, I am trying to check the quality of a large data set with 388 arrays in it. I am using bioconductor package "arrayQualityMetrics" for this. I did following where full58 is expression set: >qmnorm1 = arrayQualityMetrics(full58, "full58", force=TRUE) I got no errors except warnings! something like that: In KernSmooth::bkde2D(x, gridsize = nbin, bandwidth = bandwidth) : Binning grid too coarse for current (small) bandwidth: consider increasing 'gridsize' And in the report the boxplot is blank. Please help! Amit

Dear Amit, What version of R and the package are you using? With R2.9.2 and arrayQualityMetrics_2.2.3, which are the current release, you should not have this kind of warnings. Please let me know if you still have those messages using the current release of the package. Thank you, Audrey > Dear All, > I am trying to check the quality of a large data set with 388 arrays > in it. I am using bioconductor package "arrayQualityMetrics" for this. > I did following where full58 is expression set: >>qmnorm1 = arrayQualityMetrics(full58, "full58", force=TRUE) > > I got no errors except warnings! something like that: > In KernSmooth::bkde2D(x, gridsize = nbin, bandwidth = bandwidth) : > Binning grid too coarse for current (small) bandwidth: consider > increasing 'gridsize' > > And in the report the boxplot is blank. > > Please help! > Amit > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor >