On 06/18/2014 03:38 PM, Ryan C. Thompson wrote: > Hi, > > Is this only for the devel version? There doesn't seem to be an > S4Vectors package for R 3.1.0. In BioC release (2.14), make_XYZxyz_to_XxYyZz_subscript() is in IRanges. Note that both BioC release (2.14) and devel (3.0) use R 3.1.0. The S4Vectors package is new in BioC devel. It's a split from the IRanges package so most of the stuff that is now in S4Vectors used to be in IRanges. H. > > -Ryan > > On Wed 18 Jun 2014 11:51:57 AM PDT, Hervé Pagès wrote: >> Hi Ryan, >> >> On 06/18/2014 11:33 AM, Ryan C. Thompson wrote: >>> Hi all, >>> >>> I have 2 CharacterList objects (let's call them A and B) of equal >>> length, and I want to append the each element of List A to the >>> corresponding one in List B and get the resulting CharacterList. I can >>> do this with mendoapply(c, A, B), but this is quite slow. Is there a >>> function to do this quickly? >> >> Code adapted from "junctions" method for GAlignmentPairs objects: >> >> library(GenomicAlignments) >> >> pcombine <- function(x, y) >> { >> stopifnot(length(x) == length(y)) >> xy <- c(x, y) >> collate_subscript <- >> S4Vectors:::make_XYZxyz_to_XxYyZz_subscript(length(x)) >> tmp <- xy[collate_subscript] >> GenomicAlignments:::shrinkByHalf(tmp) >> } >> >> I'll add something like this to S4Vectors. >> >> Cheers, >> H. >> >>> >>> -Ryan >>> >>> _______________________________________________ >>> Bioconductor mailing list >>> Bioconductor at r-project.org >>> https://stat.ethz.ch/mailman/listinfo/bioconductor >>> Search the archives: >>> http://news.gmane.org/gmane.science.biology.informatics.conductor >> -- Hervé Pagès Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M1-B514 P.O. Box 19024 Seattle, WA 98109-1024 E-mail: hpages at fhcrc.org Phone: (206) 667-5791 Fax: (206) 667-1319