Newbie: Incorrect number of dimensions
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.
View this message in context: http://www.nabble.com/Newbie%3A-Incorrect-number-of-dimensions-tp15773090p15785977.html Sent from the R help mailing list archive at Nabble.com.