Hi David, thank you. Sorry, I will make sure it is clear next time.
Chris On 3/9/08, David Winsemius <[EMAIL PROTECTED]> wrote: > > Keizer_71 <[EMAIL PROTECTED]> wrote in > news:[EMAIL PROTECTED]: > > > > > Hello, > > > > I am trying to use the p.adjust function for multiple testing. > > > > here is what i have > > > > 9997 201674_s_at 0.327547396 > > 9998 221013_s_at 0.834211067 > > 9999 221685_s_at 0.185099475 > > > > I import them from excel have have the gene symbol as well as the > > pvalue > > > > here is the issue > > > >> pa<-p.adjust(pt,method="BH") > > Error in p[nna] : object is not subsettable > > In addition: Warning message: > > In is.na(p) : is.na() applied to non-(list or vector) of type > > 'closure' > >> adjust<-sum(pa<0.1) > > > > Is there anything i need to change? > > Two that I can think of: > > A) Change your posting style. Start including reproducible code. You > are making the audience guess at what pt might be. At the very least > you could have included the results of str(pt). > > B) Change the argument to p.adjust so that it is the vector of p-values > rather than what is (probably) the entire dataframe. > > See: > > gt<-"9997 201674_s_at 0.327547396 > 9998 221013_s_at 0.834211067 > 9999 221685_s_at 0.185099475 > " > gene.p<-read.table(file=textConnection(gt),header=FALSE) > pa<-p.adjust(gene.p$V3,method="BH") > > > pa > [1] 0.4913211 0.8342111 0.4913211 > > -- > David Winsemius > > ______________________________________________ > 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. > -- 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.
