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. >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor >> > > > -- > Program in Computational Biology > Division of Public Health Sciences > Fred Hutchinson Cancer Research Center > 1100 Fairview Ave. N, M1-B155 > P.O. Box 19024 > Seattle, WA 98109-1024 > > E-mail: vobencha at fhcrc.org > Phone: (206) 667-3158 > Fax: (206) 667-1319