R help - Jul 2009 - newby question

Hi,

I work with bio-conductor, but this is probably a basic R question.

I want to emulate the GOBPOFFSPRING$"GO:0008150" command:

> allBP <- GOBPOFFSPRING$"GO:0008150"
> class(allBP)
[1] "character"
> length(allBP)
[1] 16066
> 
I want to create a function so that I can execute the command by passing as a
parameter the portion in quotes in the above command
(""GO:0008150"). So my current function looks like:
> str <- "GO:0008150"
> ifunc <- function(str){
+ allBP <- paste('GOBPOFFSPRING$',str,sep='')
+ return(allBP)
+ }
> x <- ifunc(str)
> class(x)
[1] "character"
> length(x)
[1] 1
> 
But this just returns a string. How do I get the command to execute?

thanks!


      
	[[alternative HTML version deleted]]

Try this:

ifunc <- function(str){
   allBP <- GOBPOFFSPRING[[str]]
   return(allBP)}


On Sat, Jul 4, 2009 at 1:38 PM, Paul Evans <p.evans48@yahoo.com> wrote:
> Hi,
>
> I work with bio-conductor, but this is probably a basic R question.
>
> I want to emulate the GOBPOFFSPRING$"GO:0008150" command:
>
>
> > allBP <- GOBPOFFSPRING$"GO:0008150"
> > class(allBP)
> [1] "character"
> > length(allBP)
> [1] 16066
> >
>
> I want to create a function so that I can execute the command by passing as
> a parameter the portion in quotes in the above command
(""GO:0008150"). So
> my current function looks like:
>
> > str <- "GO:0008150"
> > ifunc <- function(str){
> + allBP <- paste('GOBPOFFSPRING$',str,sep='')
> + return(allBP)
> + }
> > x <- ifunc(str)
> > class(x)
> [1] "character"
> > length(x)
> [1] 1
> >
>
> But this just returns a string. How do I get the command to execute?
>
> thanks!
>
>
>
>        [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>


-- 
Henrique Dallazuanna
Curitiba-Paraná-Brasil
25° 25' 40" S 49° 16' 22" O

	[[alternative HTML version deleted]]

You probably want:

str <- "GO:0008150"
ifunc <- function(str){
allBP <- GOBPOFFSPRINGS[[str]]
return(allBP)
}

On Sat, Jul 4, 2009 at 12:38 PM, Paul Evans<p.evans48 at yahoo.com>
wrote:
> Hi,
>
> I work with bio-conductor, but this is probably a basic R question.
>
> I want to emulate the GOBPOFFSPRING$"GO:0008150" command:
>
>
>> allBP <- GOBPOFFSPRING$"GO:0008150"
>> class(allBP)
> [1] "character"
>> length(allBP)
> [1] 16066
>>
>
> I want to create a function so that I can execute the command by passing as
a parameter the portion in quotes in the above command
(""GO:0008150"). So my current function looks like:
>
>> str <- "GO:0008150"
>> ifunc <- function(str){
> + allBP <- paste('GOBPOFFSPRING$',str,sep='')
> + return(allBP)
> + }
>> x <- ifunc(str)
>> class(x)
> [1] "character"
>> length(x)
> [1] 1
>>
>
> But this just returns a string. How do I get the command to execute?
>
> thanks!
>
>
>
> ? ? ? ?[[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>


-- 
Jim Holtman
Cincinnati, OH
+1 513 646 9390

What is the problem that you are trying to solve?

Hi Paul --

Paul Evans wrote:
> Hi,
> 
> I work with bio-conductor, but this is probably a basic R question.
> 
> I want to emulate the GOBPOFFSPRING$"GO:0008150" command:
> 
> 
>> allBP <- GOBPOFFSPRING$"GO:0008150"
>> class(allBP)
> [1] "character"
>> length(allBP)
> [1] 16066
> 
> I want to create a function so that I can execute the command by passing as
a parameter the portion in quotes in the above command
(""GO:0008150"). So my current function looks like:
> 
>> str <- "GO:0008150"
>> ifunc <- function(str){
> + allBP <- paste('GOBPOFFSPRING$',str,sep='')
> + return(allBP)
> + }
>> x <- ifunc(str)
>> class(x)
> [1] "character"
>> length(x)
> [1] 1
> 
> But this just returns a string. How do I get the command to execute?
use GOBPOFFSPRING[[str]]. It is in some ways a general R question, but
actually GOBPOFFSPRING is an instance of a class with specialized
functionality, and you'll better advice about it on the Bioconductor
mailing list.

Martin
> 
> thanks!
> 
> 
>       
> 	[[alternative HTML version deleted]]
> 
> ______________________________________________
> R-help at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.