and in which package is it implemented? On Mon, Mar 1, 2010 at 2:39 PM, Michael Lawrence <[email protected]>wrote:
> > > On Mon, Mar 1, 2010 at 5:25 AM, Martin Morgan <[email protected]> wrote: > >> On 03/01/2010 12:40 AM, Johannes Rainer wrote: >> > dear all, >> > >> > I'm just wondering if anybody has already implemented a ChIP-seq peak >> > detection algorithm (like MACS, PeakSeq...) or plans to do so. >> >> See http://bioconductor.org/packages/release/Software.html and search >> for chipseq, e.g., chipseq, ChIPseqR implement peak detection algorithms >> (though not MACS or PeakSeq; approximations of these algorithms are not >> difficult to implement using IRanges / Biostrings / ShortRead >> infrastructure). >> >> > Just to clarify, the chipseq package, while useful for chipseq in general, > does not implement a peak detection method. Deepayan's method is implemented > separately. > > >> Martin >> >> > >> > bests, jo >> > >> >> >> -- >> Martin Morgan >> Computational Biology / Fred Hutchinson Cancer Research Center >> 1100 Fairview Ave. N. >> PO Box 19024 Seattle, WA 98109 >> >> Location: Arnold Building M1 B861 >> Phone: (206) 667-2793 >> >> _______________________________________________ >> Bioc-sig-sequencing mailing list >> [email protected] >> https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing >> > > -- Johannes Rainer, PhD Bioinformatics Group, Division Molecular Pathophysiology, Biocenter, Medical University Innsbruck, Fritz-Pregl-Str 3/IV, 6020 Innsbruck, Austria and Tyrolean Cancer Research Institute Innrain 66, 6020 Innsbruck, Austria Tel.: +43 512 570485 13 Email: [email protected] [email protected] URL: http://bioinfo.i-med.ac.at [[alternative HTML version deleted]] _______________________________________________ Bioc-sig-sequencing mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
