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James Anderson <janderson_net at="" yahoo.com=""> writes: > Hi, > > I have an urgent question about MAS5: > > > In the affy package, the full argument of the command mas5() > mas5(object, normalize = TRUE, sc = 500, analysis = "absolute", ...) > What's the default setting? Say, if I type mas5(Data), is this going > to normalize or it does not? If normalize, what's the default scale? The default arguments to functions are documented in the usage section of the function's man page. So if you do: library("affy") help("mas5") Then in usage you will see: mas5(object, normalize = TRUE, sc = 500, analysis = "absolute", ...) And so this means that the default value of normalize is TRUE and the default scale value is 500. You can also take a quick look using args() to see that the code matches the doc: args(mas5) + seth -- Seth Falcon | Computational Biology | Fred Hutchinson Cancer Research Center http://bioconductor.org