Hi Tiphaine, As you're probably already aware, a change in the latest release of Ensembl breaks its vignette:
http://bioconductor.org/checkResults/3.1/bioc-LATEST/coMET/zin2-buildsrc.html On D-day, only packages that pass build/check will be made available to BioC 3.1 users via biocLite(). So please fix coMET asap so it can make it into BioC 3.1. Thanks, H. On 03/23/2015 12:23 PM, Martin, Tiphaine wrote:
Hi all, I'm pleased to announce the availability of the coMET package (http://bioconductor.org/packages/devel/bioc/html/coMET.html , https://github.com/TiphaineCMartin/coMET), which visualises regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns. The R package is designed for human epigenetic data, but can also be applied to genomic and functional genomic datasets in any species such as gene expression. coMET exists also in a Shiny-based web application (http://www.epigen.kcl.ac.uk/comet), which allows users to run a pre-formated version (currently only for human genome). It is possible also to extract the correlations between omic features with their pvalues. Please let me know of any issues you encounter. Thanks, Tiphaine Martin ---- Tiphaine Martin I PhD Student I TwinsUK Department of Twin Research, Kings College London, St Thomas' Hospital Campus, 3rd Floor South Wing Block D Westminster Bridge Road, London SE1 7EH, UK Email : tiphaine.mar...@kcl.ac.uk<mailto:tiphaine.mar...@kcl.ac.uk> Direct: +44 (0) 207 188 1508 Fax: +44 (0) 207 188 6761 London Microbiome Meeting, 28th of May 2015: http://londonmicrobiome.org/ Mathematical and Quantitative Genomics conference, 29th of May: http://quantgen.soc.srcf.net/qg15/ [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
-- 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: hpa...@fredhutch.org Phone: (206) 667-5791 Fax: (206) 667-1319 _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
