I have the following table in csv format in Excel: 1 1 1 2 2 2 1415670_at 1 365.1 293.4 288.9 394.5 312 381.6 1415671_at 2 556.1 584.2 567.8 592.8 471.6 513.1 1415672_at 3 1048.3 763.1 1074.9 852.3 826.1 898.3 1415673_at 4 60.8 51.7 51.6 224 248.4 150.7 1415674_at 5 129.1 107.2 230.4 175.5 250.5 172.4 I have been using SAM for getting a list of up and down regulated genes. For that purpose there is an Excel plugin that does the task with the above mentioned file. The problem that I have is that I need to use R for analizing this data, for that there is a package called SAMR. I want to get the list of up and down regulated genes with the names that are in the first column, but no success at all. The manual is available here: http://cran.r-project.org/web/packages/samr/samr.pdf The small program that I made was: filename<-"test.csv" y<-c(1,1,1,2,2,2) //I have to do this in this way, but I will extract the //first row from the csv file later m<-read.csv(filename,sep=",",row.names=1) t<-as.matrix(m) samfit<-SAM(t,y,resp.type="Two class unpaired") when I put print(samfit) I got the following data: Genes down Gene ID Gene Name Score(d) Numerator(r) Denominator(s+s0) Fold Change [1,] g1753 1753 -2.025 -707.725 349.446 0.582 [2,] g1375 1375 -1.038 -272.583 262.7 0.797 [3,] g1302 1302 -0.955 -296.733 310.685 0.739 [4,] g1598 1598 -0.923 -352.725 382.068 0.722 [5,] g1500 1500 -0.913 -442.142 484.177 0.352 but I need the gene names and not that gene ID in the list of genes up and genes down any help? Thanks J M