[BioC] MAS5

Seth Falcon sfalcon at fhcrc.org
Mon Mar 19 23:59:41 CET 2007


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



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