[BioC] Problem outputting normalized file

[Richard Friedman]

Jean,

	Thank you very much. As best I can see write.xls was not covered in 
the "Introduction to marrayInput". It is also not discussed  in the 
on-line help under marrayInput. Is there some way I could have learned 
about this function short of querying the news group? I ask in case 
there is a source of documentation that I am apparently missing.

Thanks and best wishes,
Rich
------------------------------------------------------------
Richard A. Friedman, PhD
Associate Research Scientist
Herbert Irving Comprehensive Cancer Center
Oncoinformatics Core
Lecturer
Department of Biomedical Informatics
Box 95, Room 130BB or P&S 1-420C
Columbia University
630 W. 168th St.
New York, NY 10032
(212)305-6901 (5-6901) (voice)
friedman at cancercenter.columbia.edu
http://cancercenter.columbia.edu/~friedman/

"In slumberland there are 100 kinds of halavah and you
have to eat every one." -Rose Friedman, age 7


On Monday, November 10, 2003, at 12:56 PM, Jean Yee Hwa Yang wrote:

> Try
>
> write.table or
>
> write.xls(maM(swirl), file="swirlnorm.xls") ## A function in 
> marrayInput.
>
> Jean
>
>
>>> write.table(swirl,"")
>> Error in as.data.frame.default(x[[i]], optional = TRUE) :
>>         can't coerce marrayRaw into a data.frame
>>> ls()
>> [1] "last.warning" "RGcol"        "swirl"        "swirl.norm"
>> "swirl.norm1"
>> [6] "swirl.norm2"  "swirl.normm"  "swirl.norms"  "tmp"
>>>
>>
>> (The "" is just for illustration. I get the same error message
>> when I output to a file, of course.)
>>
>> Also, when I try write.matrix, I get,
>>
>>> write.matrix(swirl.norm,"")
>> Error: couldn't find function "write.matrix"
>>>
>>
>> I would appreciate any suggestions as to how I can output the
>> normalized intensities. I regret bothering the group with
>> somethin so elementary. I have read the relevant parts of
>> "An Introduction to R", and R Data Import/Export, "The Basics
>> of S-Plus" and the on-line help for the write, write.table,
>> and write.matrix commands. I would expecially appreciate it,
>> if in addition to any specific suggestions, you could something
>> that I could read that deals with this topic.
>>
>> Thanks and best wishes,
>> Rich
>> ------------------------------------------------------------
>> Richard A. Friedman, PhD
>> Associate Research Scientist
>> Herbert Irving Comprehensive Cancer Center
>> Oncoinformatics Core
>> Lecturer
>> Department of Biomedical Informatics
>> Box 95, Room 130BB or P&S 1-420C
>> Columbia University
>> 630 W. 168th St.
>> New York, NY 10032
>> (212)305-6901 (5-6901) (voice)
>> friedman at cancercenter.columbia.edu
>> http://cancercenter.columbia.edu/~friedman/
>>
>> "In slumberland there are 100 kinds of halavah and you
>> have to eat every one." -Rose Friedman, age 7
>>
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>>
>