[BioC] Using Biostring to make position frequency matrix

[Fabrice Tourre]

Thank you very much.

On Thu, Dec 5, 2013 at 12:17 PM, Valerie Obenchain <vobencha at fhcrc.org> wrote:
> Hi,
>
> You can use consensusMatrix().
>
>   library(Biostrings)
>   data(HNF4alpha)
>   library(BSgenome.Dmelanogaster.UCSC.dm3)
>   chr3R <- Dmelanogaster$chr3R
>   pfm <- consensusMatrix(HNF4alpha)
>
> More examples and details on the ?consensusMatrix man page.
>
> Valerie
>
>
> On 12/04/2013 04:13 PM, Fabrice Tourre wrote:
>>
>> Dear list,
>>
>> There is a PWM function in Biostring to make  position weight matrix.
>> How can I make a  position frequency matrix with Biostring? Thank you.
>>
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>
>
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