Hi, This is to announce that a BSgenome package for sacCer3 is now available in BioC devel (i.e. R 2.14 + BioC 2.9): > library(BSgenome.Scerevisiae.UCSC.sacCer2) > sacCer2 <- Scerevisiae > library(BSgenome.Scerevisiae.UCSC.sacCer3) > sacCer3 <- Scerevisiae > seqlengths(sacCer2) chrI chrII chrIII chrIV chrV chrVI chrVII chrVIII chrIX chrX 230208 813178 316617 1531919 576869 270148 1090947 562643 439885 745742 chrXI chrXII chrXIII chrXIV chrXV chrXVI chrM 2micron 666454 1078175 924429 784333 1091289 948062 85779 6318 > seqlengths(sacCer3) chrI chrII chrIII chrIV chrV chrVI chrVII chrVIII chrIX chrX 230218 813184 316620 1531933 576874 270161 1090940 562643 439888 745751 chrXI chrXII chrXIII chrXIV chrXV chrXVI chrM 666816 1078177 924431 784333 1091291 948066 85779 The 2micron sequence is gone. The package is only available as a source package for now. Binaries for Windows and Mac will follow soon. In the mean time, users on those platforms should be able to install from source (i.e. with biocLite(..., type="source")). Announcement by UCSC: https://lists.soe.ucsc.edu/pipermail/genome- announce/2011-October/000233.html Starting page for browsing this new assembly: http://genome.ucsc.edu/cgi- bin/hgGateway?clade=other&org=S.+cerevisiae Cheers, H. -- Hervé Pagès Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M1-B514 P.O. Box 19024 Seattle, WA 98109-1024 E-mail: hpages at fhcrc.org Phone: (206) 667-5791 Fax: (206) 667-1319