[BioC] ChIPpeakAnno: BED2RangedData

[Martin Morgan]

Julie Zhu wrote:
> Hi Khademul,
> 
> Thank you very much for the great suggestions!
> 
> I have implemented BED2RangedData as well as GFF2RangedData in
> ChIPpeakAnno_1.2.2 for converting BED/GFF format to RangedData before
> calling annotatePeakInBatch. Please let me know if you encounter any
> problems. Thanks!

better to use rtracklayer::import -- no need to duplicate existing
functions. Martin

> Best regards,
> 
> Julie
>>
>> On 11/27/09 12:12 PM, "Khademul Islam" <khademul.islam at gmail.com> wrote:
>>
>>> Hello Dr. Julie,
>>>
>>>
>>> It would be really really helpful, specially who has only little knowledge
>>> about R, if you impliment "bed2RangedData" function. It will be pretty
>>> straight forward use of the bed file that is generated by peak calling
>>> softwares.
>>>
>>> If you already have version with this function, I would be happy to
>>> try..............
>>>
>>> Thanks again
>>>
>>> Khademul
>>>
>> *******************************************
>> Lihua Julie Zhu, Ph.D
>> Research Associate Professor
>> Program Gene Function and Expression
>> Program in Molecular Medicine
>> University of Massachusetts Medical School
>> 364 Plantation Street, Room 613
>> Worcester, MA 01605
>> 508-856-5256
>> http://www.umassmed.edu/pgfe/faculty/zhu.cfm
>>
>>
> 
> 
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> 
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-- 
Martin Morgan
Computational Biology / Fred Hutchinson Cancer Research Center
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