HI, ?as.integer() #documentation Note that current implementations of R use 32-bit integers for integer vectors, so the range of representable integers is restricted to about +/-2*10^9: ‘double’s can hold much larger integers exactly. as.numeric(c(75533, 4756922556, 88210, 6715122129)) #[1] 75533 4756922556 88210 6715122129 #or as.double(c(75533, 4756922556, 88210, 6715122129)) #[1] 75533 4756922556 88210 6715122129 A.K.
----- Original Message ----- From: PIKAL Petr <petr.pi...@precheza.cz> To: jgibbons1 <jgibb...@hsph.harvard.edu>; "r-help@r-project.org" <r-help@r-project.org> Cc: Sent: Tuesday, July 16, 2013 12:54 PM Subject: Re: [R] Errors using large numbers ((i) all entries of 'x' must be nonnegative and finite and (ii) NAs introduced by coercion) Well, You could find it yourself, as.integer(c(75533, 4756922556, 88210, 6715122129)) [1] 75533 NA 88210 NA Warning message: NAs introduced by coercion > matrix(c(75533, 4756922556, 88210, 6715122129), nrow=2) [,1] [,2] [1,] 75533 88210 [2,] 4756922556 6715122129 Using as.integer inputs NA as integer type has limited size. Petr > -----Original Message----- > From: r-help-boun...@r-project.org [mailto:r-help-bounces@r- > project.org] On Behalf Of jgibbons1 > Sent: Tuesday, July 16, 2013 4:44 PM > To: r-help@r-project.org > Subject: [R] Errors using large numbers ((i) all entries of 'x' must be > nonnegative and finite and (ii) NAs introduced by coercion) > > Hello, > I am fairly new to R, so please forgive me if this is a fairly easy > solution. > > I am trying to perform multiple Fisher's Exact tests or Pearson's Chi- > squared contingency tests from a datamatrix in which data from each row > is data for an independent test. > > My data is formatted as such: > > AAA 75533 4756922556 88210 6715122129 > BBB 14869 4756983220 16384 6715193955 > CCC 7230 4756990859 8559 6715201780 > DDD 18332 4756979757 23336 6715187003 > EEE 14733 4756983356 16826 6715193513 > FFF 2918 4756995171 3433 6715206906 > GGG 3726 4756994363 4038 6715206301 > HHH 6196 4756991893 7011 6715203328 > III 7925 4756990164 9130 6715201209 > JJJ 1434 4756996655 1602 6715208737 > > Where the 1st column is the identifier, the 2nd column = observations > 1, the 3rd column = background counts 1, the 4th column = observations > 2 and the 5th column = background counts 2. > > I am loading my data as such: > > > data=read.table("My.File", header=FALSE) > > And I am looping through each row to perform a test like this: > > > pvalues=c("pvalue") > > for(i in 1:10){ > + datamatrix=matrix(c(as.integer(data[i,2:5])),nrow=2) > + fisherresult=fisher.test(datamatrix) > + pvalues=cbind(pvalues,fisherresult[1]) > + } > > Here is the Error I am Getting: > > Error in fisher.test(datamatrix) : > all entries of 'x' must be nonnegative and finite In addition: > Warning messages: > 1: In matrix(c(as.integer(data[i, 2:5])), nrow = 2) : > NAs introduced by coercion > 2: In matrix(c(as.integer(data[i, 2:5])), nrow = 2) : > NAs introduced by coercion > > > When I replace the large number in the 3rd and 5th column with smaller > numbers, the statistical calculation works fine. > > Any ideas? Any help would be GREATLY appreciated! > > > > -- > View this message in context: http://r.789695.n4.nabble.com/Errors- > using-large-numbers-i-all-entries-of-x-must-be-nonnegative-and-finite- > and-ii-NAs-introduced-b-tp4671685.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. ______________________________________________ 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. ______________________________________________ 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.