[BioC] a question about how to use ChIPseqR

[Valerie Obenchain]

cc'ing Peter (package author) in case he hasn't seen this message.

Valerie


On 12/11/2011 01:31 PM, wang peter wrote:
> hello all
>
> i think the strandPileup function support both of data.frame and
> readAligned object
> as import data
> so that is the coding
>
> library(ShortRead)
> library(ChIPseqR)
> bamfile<- "nuclosome_MG.bam"
> aln1<- readAligned(bamfile, type="BAM")
> counts<- strandPileup(aln1, chrLen=2e6, extend=1, coords="leftmost",
> plot=FALSE)
> Error in is.null(arg) : 'arg' is missing
>
>
>
>> sessionInfo()
> R version 2.13.2 (2011-09-30)
> Platform: x86_64-unknown-linux-gnu (64-bit)
>
>