Hi,
 I have fitted a univariate cox regression a data set and retained the genes whose p-value were less or equal to 0.05. the total number of retained genes is 2746. I also filtered genes based on the same condition (pval <= 0.05) on the same data set using coxfilter function in genefilter package and got  2648 genes, i.e 98 genes less than the number of genes that I got by univariate cox model. Should I have not got the same number of genes?
 
 Moreover, I think the output of coxfilter is just a set of genes whose pval <= a threshold like 0.05 and it doesn't provide a gene set based on p-val ranking (ascending or descending) which I need.
 
 regards,
 carol
 
       
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