[BioC] extracting a column as a vector.

[James W. MacDonald]

On 11/8/2012 9:14 AM, Martin Morgan wrote:
> On 11/08/2012 06:02 AM, James W. MacDonald wrote:
>> Hi Priya,
>>
>> On 11/8/2012 3:25 AM, priya [guest] wrote:
>>> I have a matrix in the following way :
>>>
>>> probes p1 p2 p3 p4 p5
>>>
>>> 244971 5  6  7  8  9
>>> 244972 8  7  9  7  8
>>> 244973 4  3  2  6  7
>>> 244973 8  5  3  6  8
>>>
>>>   I would like to extract only the probe names and tried this:
>>>   degtl - original matrix( containing 22810 entries)
>>>
>>>
>>> ids<- degtl[,1]
>>>
>>> and I got
>>> head(ids)
>>> [1] 244941_at   244959_s_at 244974_at   245009_at   245024_at   
>>> 245028_at
>>> 22810 Levels: 244901_at 244902_at 244903_at 244904_at 244905_at 
>>> 244906_at
>>> 244907_at 244908_at ... AFFX-TrpnX-M_at.
>>>
>>> I would like to extract the probe names as a vector in  the 
>>> following form :
>>
>> Right. Well, this doesn't have anything to do with Bioconductor, and 
>> in fact is
>> a very rudimentary thing to do in R. So I wouldn't even suggest 
>> asking on
>> R-help. Although you could try, if you are up for a bit of public 
>> shaming.
>
> Actually, the question has been asked, in various forms, here at least 
> three times
>
> https://stat.ethz.ch/pipermail/bioconductor/2012-November/048943.html
> https://stat.ethz.ch/pipermail/bioconductor/2012-November/049067.html
> https://stat.ethz.ch/pipermail/bioconductor/2012-November/049096.html
>
> R once
>
> https://stat.ethz.ch/pipermail/r-help/2012-November/328389.html
>
> and I believe on StackOverflow!

Well, that's a +1 for persistence! But probably a -Inf for self reliance.

Jim


>
> Martin
>
>>
>> Anyway you seem to be lacking very basic knowledge and asking 
>> rudimentary
>> questions on a listserv is probably the least efficient way to learn 
>> things.
>> Instead, may I suggest you do some reading? If you ever expect to go 
>> far with R
>> (or any endeavor you might consider, now that I think about it) you 
>> will do well
>> to figure out how to help yourself.
>>
>> If I were you, I would read 'An Introduction to R'
>> http://cran.r-project.org/doc/manuals/R-intro.html. This goes over 
>> the basic
>> data structures in R and shows how to manipulate them.
>>
>> Best,
>>
>> Jim
>>
>>
>>>
>>> ids<- c("244971","244972","244973",......) for all 22810 levels.Iam 
>>> unable to
>>> do it and always end up with a list.
>>>
>>>
>>>
>>>   -- output of sessionInfo():
>>>
>>> R version 2.15
>>> Linux
>>>
>>> -- 
>>> Sent via the guest posting facility at bioconductor.org.
>>>
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>>
>
>

-- 
James W. MacDonald, M.S.
Biostatistician
University of Washington
Environmental and Occupational Health Sciences
4225 Roosevelt Way NE, # 100
Seattle WA 98105-6099