This is exactly what i am looking for. many thanks Chris
On 3/2/08, Henrique Dallazuanna <[EMAIL PROTECTED]> wrote: > > You have a 'matrix' not a 'list', so > I think you want something like this: > > all_differ[all_differ[, 'BY'] <= 0.01, 'BY'], this will return the > values where column is 'BY' in all rows which is less or equal to > 0.01. > > > On 02/03/2008, Keizer_71 <[EMAIL PROTECTED]> wrote: > > > > 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 <[EMAIL PROTECTED]> > 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@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@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. > > > > ______________________________________________ > > 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 > -- Christophe Lo (078) 8275 7029 [EMAIL PROTECTED] [[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.
