So it was that simple ... It is. Thanks. 2013/2/21 Tim Triche, Jr. <tim.triche@gmail.com> > library(GenomicRanges) > > blah <- list(foo=GRanges(), bar=GRanges(), baz=GRanges()) > class(blah) > ## [1] "list" > > bleh <- GRangesList(blah) > class(bleh) > ## [1] "GRangesList" > ## attr(,"package") > ## [1] "GenomicRanges" > > In other words, I think you're looking for the GRangesList() function. > > > > > On Wed, Feb 20, 2013 at 12:33 PM, Hermann Norpois <hnorpois@gmail.com>wrote: > >> Hello, >> >> I would like to generate a GRangesList object from multiple narrow peak >> files. I tried this and it works: >> >> ord <- function (ddir, namen){ #ddir is the directory of interest and >> namen >> a vector with names e.g. "GSM1008569" "GSM1008578" "GSM1008583" >> >> >> open.list <- sapply (namen, function (x) {feile <- list.files (ddir, >> pattern=x, full.names=TRUE) >> feile <- read.table (feile) >> file.gr <- GRanges (seqnames=feile$V1, >> ranges= IRanges (start=feile$V2, end=feile$V3), edensity=feile$V5, >> epeak=feile$V10) >> >> } >> >> ) >> names(open.list) <- namen >> return (open.list) >> } >> >> After for instance >> >> test <- ord (ddir, namen) >> >> I get a nice list of GRange objects but I would like to transform this in >> a >> GRangesList. How does it work? >> If there is an alternative approach to generate a GRangeList directly ( I >> guess there is one but I did not find a way to manage this) please let me >> know. >> >> Thanks >> Hermann >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor@r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor >> > > > > -- > *A model is a lie that helps you see the truth.* > * > * > Howard Skipper<http: cancerres.aacrjournals.org="" content="" 31="" 9="" 1173.full.pdf=""> > [[alternative HTML version deleted]]