Dear Ivar, How can I extend the limit of "n" size?
When I tried this function with n>= 15, it fails: > f <- function(bases, n){apply(expand.grid(rep(list(bases),n)), 1, paste, > collapse="")} > f(c("A", "T", "C", "G"), 15) Error in rep.int(rep.int(seq_len(nx), rep.int(rep.fac, nx)), orep) : cannot allocate vector of length 1073741824 > f(c("A", "T", "C", "G"), 30) Error in rep.int(rep.int(seq_len(nx), rep.int(rep.fac, nx)), orep) : invalid 'times' value In addition: Warning message: In rep.int(rep.int(seq_len(nx), rep.int(rep.fac, nx)), orep) : NAs introduced by coercion - Gundala Viswanath Jakarta - Indonesia On Wed, Dec 17, 2008 at 6:41 PM, Ivar Herfindal <ivar.herfin...@bio.ntnu.no> wrote: > To add on Robin Hankin's solution, if you want to generate the strings you > can try: > f <- function(bases, n){apply(expand.grid(rep(list(bases),n)), 1, paste, > collapse="")} > f(c("A", "T", "C", "G"), 2) > f(c("A", "T", "C", "G"), 4) > > best > > Ivar > > Robin Hankin wrote: >> >> Gundala >> >> f <- function(n){expand.grid(rep(list(seq_len(4)),n))} >> >> >> HTH >> >> Robin >> >> >> Gundala Viswanath wrote: >>> >>> Dear all, >>> >>> Is there an efficient way in R to construct all strings from 4 bases >>> (ATCG). >>> If we want a length L string, there are 4 ^ L possible strings of such. >>> >>> e . g with L = 2 we have AA, AT, AC, AG, .. GC, GA, GT, GG as many as >>> 4 ^ 2 = 16 strings, >>> with L = 3 we have as many as 4 ^ 3 = 64 strings >>> >>> >>> - Gundala Viswanath >>> Jakarta - Indonesia >>> >>> ______________________________________________ >>> 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.