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]]
>>
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>>
>
>
>
> --
> *A model is a lie that helps you see the truth.*
> *
> *
> Howard Skipper<http://cancerres.aacrjournals.org/content/31/9/1173.full.pdf>
>

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