[EMAIL PROTECTED] writes: > Full_Name: emiel ver loren > Version: 2.2.0 > OS: Windows XP > Submission from: (NULL) (145.117.31.248) > > > Dear R-community and developers, > > I have been trying to read in a tab delimeted file where the column names and > the row names are of the form "GO:0000051" (gene ontology IDs). When using: > > > gomat<-read.table("test.txt") > > colnames(gomat)[1] > [1] "GO.0000051" > > rownames(gomat)[1] > [1] "GO:0000002" > > Which means that ":" is transformed into a "." !! This seems like Excel when > it > is trying to guess what I am really ment (and turning 1/1/1 into 1-1-2001).
This is what check.names=FALSE is for... (and NOT a bug, please don't abuse the bug repository, use the mailing lists) > Furthermore, I found the following quite strange as well: > > > gomat2<-read.delim2("test.txt",header=FALSE) > > gomat2[1,1:2] > V1 V2 > 1 GO:0000051 GO:0000280 > > as.character(gomat2[1,1:2]) > [1] "8" "2" > > as.character(gomat2[1,1]) > [1] "GO:0000051" > > I have found a way to work around it, but I am wandering what's happening.... Yes, this is a bit nasty, but... What is happening is similar to this: > d <- data.frame(a=factor(LETTERS), b=factor(letters)) > d[1,] a b 1 A a > as.character(d[1,]) [1] "1" "1" > as.character(d[1,1]) [1] "A" > as.character(d[1,1,drop=F]) [1] "1" or this: > l <- list(a=factor("x"),b=factor("y")) > l $a [1] x Levels: x $b [1] y Levels: y > as.character(l) [1] "1" "1" The thing is that as.character on a list will first coerce factors to numeric, then numeric to character. I'm not sure whether there could be a rationale for it, but it isn't S-PLUS compatible (not 6.2.1 anyway, which is the most recent one that I have access to). -- O__ ---- Peter Dalgaard Ă˜ster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~~~~~~~~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel