[BioC] Need assistance with the file preparation for ChIPpeakAnno. (Jennifer Yang from University of California, Santa Barbara)

[Zhu, Lihua (Julie)]

Jennifer,

The name column name=mm9[ ,4] has duplicates (needs to be unique).

Best regards,

Julie


On 1/19/11 4:47 PM, "Chu-Ya (Jennifer) Yang" <chu-ya.yang at lifesci.ucsb.edu>
wrote:

> Dear Prof. Zhu,
> 
> Thanks for the prompt reply and assistance.  I checked the link and
> tried the following commands and here is the error message I obtained.
> Would you please help me check it?
> 
> Thank you,
> 
> Jennifer
> 
>> mm9 <- read.table(file="/home/Jennifer/mm9_bed/mm9.bed",header=FALSE)
>> test.bed=data.frame(cbind(chrom=mm9[ ,1], chromStart=mm9[ ,2],
> chromEnd=mm9[ ,3], name=mm9[ ,4], strand=mm9[ ,6]))
>> test.rangedData=BED2RangedData(test.bed)
> Error in `rownames<-`(`*tmp*`, value = c("82082", "82083", "82084",
> "82084",  :
>    duplicate rownames not allowed
>> 
> 
> 
> 
>