[BioC] ChipPeakAnno question about file conversion

[Zhu, Lihua (Julie)]

Dear Byung-Kwan,

I could have implemented the function as what you are using. Currently, you
will need to read in the data as x = read.table("mydata.gff", sep="\t",
header=FALSE), then call GFF2RangedData(x).

For detailed information, please type ?BED2RangedData. Thanks!

Best regards,

Julie


On 3/11/12 6:03 AM, "bcho at kaist.ac.kr" <bcho at kaist.ac.kr> wrote:

> Dear Dr. Zhu,
>  
>  
> I am a very beginner in R and your ChIPpeakAnno package.
>  
> To convert my gff file to RangedData format, I tried to
>  
>> GFF2RangedData(³mydata.gff², header = FALSE)
>  
> but I got this problem
>  
>> No valid mydata.gff passed in. .....
>  
>  
> How can I solve this problem? I am attaching my peak file which is obtained
> from NimbleScan. 
>  
> Please give my your advise and thanks in advance.
>  
>  
>  
> Byung-Kwan 
>