[BioC] F p.value.adj missing from write.fit/limma

Pascal Gellert pascal.gellert at mpi-bn.mpg.de
Thu Mar 29 15:20:33 CEST 2012

Dear Bioconductor members,

I am using limma to analyze my microarrays. Therefore I apply lmFit and 
eBayes on my normalized data. Finally I write the result to a text file 
by write.fit function. For multiple testing correction I chose 
adjust='fdr' in the write.fit function. Usually everything works just as 
it should. However in some cases, the result file does not contain the 
column "F p.value.adj". The columns with the adjusted p-values 
("p.value.adj") and p-value for the F-statistic ("F p.value") are present.
Obviously I am doing something wrong, but I cannot figure out what it is 
since I am using exactly the same code for different data sets and the 
"F p.value.adj" column does not show up for one data set only.

Thanks for your help,


R version 2.10.1 (2009-12-14)

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