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...l). It did not give me any error message, either. All it did was just giving out a new command prompt--no reaction to the plot command. I suppose whenever I gives out a command of plot, it will invoke the AquaTerm for a small graph, as I experience in octave. What can I do for it? Many thanks, Minyu Chen

...s Ratio 0.0000 1.0000 1.0000 5.79 NA 5.41 6.19 Adjusted to: adv_binc_ratio=2.611027 agem1=40.47638 repmethIO=0.1456293 repmethSR=0.6711471 no_dis_no_def=0.4463533 prevLO=0.06590113 prevOO=0.7785591 prevRP=0.06738472 owning=0.4765593 Thank you very much for your help. Thanks, Minyu Chen

...mands) that to summary the marginal effect, I don't have to specify the ranges for the discrete variables. However, I use the command again (with slight modification because of the newly added variables) it doesn't work. I don't know what went wrong. Thank you very much. Thanks, Minyu Chen

...ist with FDR adjusted p.values less than 0.01 p.adj <- p.adjust(fit$p.value[,2]) sigGene.adj <- probeList[ p.adj < 0.01] ## without FDR adjustment sigGene <- probeList[ fit$p.value[,2] < 0.01] } -- - Amy W. -- Minyue Wang (Amy) Graduate student, Bioinformatics mwang3@ncsu.edu 919-5210893 [[alternative HTML version deleted]]

Hi all, My name is Amy, I am a masters student in Bioinformatics at North Carolina State University. I am working on a project and I am trying to use the lumi R package for microarray data analysis. I have shown the sample code here and have questions about modifying the sample code for my own data. lumi package in R, example.lumi, the sample data has 8000 features and 4 samples I have