[R] Newbie: Incorrect number of dimensions

[Keizer_71]

Here is the structure

> str(all_differ)
 num [1:6280, 1:8] 2.22e-16 2.22e-16 2.22e-16 2.22e-16 2.22e-16 ...
 - attr(*, "dimnames")=List of 2
  ..$ : NULL
  ..$ : chr [1:8] "rawp" "Bonferroni" "Holm" "Hochberg" ...

I tried, but it still giving me the same error message "Incorrect Dimension"

probe.names<-all_differ[[1]][all_differ[[6280]][,"BY"]<=0.01]

Am i using the wrong dimension?

thanks,
Keizer



jholtman wrote:
> 
> It would be helpful if you provided commented, minimal,
> self-contained, reproducible code.
> 
> What does str(all_differ) say?  That will tell you the structure of
> the object that you are trying to work with.
> 
> On Sat, Mar 1, 2008 at 3:35 AM, Keizer_71 <christophe.lo at gmail.com> wrote:
>>
>> > dim(data.sub)
>> [1] 10000   140
>>
>> #####extracting all differentially express genes##########
>> library(multtest)
>> two_side<- (1-pt(abs(data.sub),50))*2
>> diff<- mt.rawp2adjp(two_side)
>> all_differ<-diff[[1]][37211:10000,]
>> all_differ
>>
>> #####list of differentially expressed genes##########
>> > probe.names<-
>> + all_differ[[2]][all_differ[[1]][,"BY"]<=0.01]
>>
>> Error in all_differ[[1]][, "BY"] : incorrect number of dimensions
>>
>> Hi,
>>
>> I am pretty new with R. What i am trying to do is to find all
>> differentially
>> express genes and list of differentially expressed genes. Am i doing
>> something wrong?
>>
>> I keep getting incorrect number of dimensions. How do i find out the
>> correct
>> dimensions?
>>
>> thanks,
>> Keizer
>>
>> --
>> View this message in context:
>> http://www.nabble.com/Newbie%3A-Incorrect-number-of-dimensions-tp15773090p15773090.html
>> Sent from the R help mailing list archive at Nabble.com.
>>
>> ______________________________________________
>> 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 you are trying to solve?  Tell me what you want to
> do, not how you want to do it.
> 
> ______________________________________________
> 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.
> 
> 

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