[BioC] on PWM in biostrings
hpages at fhcrc.org
Fri Aug 10 19:51:48 CEST 2012
On 08/10/2012 10:19 AM, Shouyong Peng wrote:
> I was expecting PWM(x,type="prob") would be equivalent to
> censensusMatrix(x, as.prob=TRUE) to give a matrix with colSums to 1.
> May I know what is formula for this "prob" in PWM?
It uses the algorithm described in this paper:
Wasserman, WW, Sandelin, A., (2004)
Applied bioinformatics for the identification of regulatory
elements, Nat Rev Genet.,
See PWM() man page for the details.
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