1. Paper
  2. Martin, T.C., Yet, I., Tsai, P-C., Bell and J.T. (2015). “coMET: visualisation of regional epigenome-wide association scan results and DNA co-methylation patterns.” BMC Bioinformatics.

  3. Documentation
    • Availability and requirements

    Project name: coMET
    Project home page: http://epigen.kcl.ac.uk/comet
    Operating system(s): Platform independent
    Programming language: R 3.1.1 or higher
    Other requirements: Bioconductor 3.1 or higher, Shiny
    License: GNU GPL 2 or higher
    Any restrictions to use by non-academics: none

    • Documentation

    coMET data input consists of four types of files that the user can provide to produce the plot:

    1. info file, defined in the option mydata.file . This file is mandatory and should be in tabular format with a header.
    2. correlation file, defined in the option cormatrix.file. This file is mandatory and should be in tabular format with a header.
    3. extra info files are defined in the option mydata.file.large. These files are optional, and if provided should be in tabular format with a header.
    4. Annotation info file, defined in the option biofeat.user.file.

    In addition, if users use coMET from the command line, they can use a data.frame format, but they need to change the value of mydata.type, mydata.file.large.type and cormatrix.type into matrix or listmatrix

    Further details are provided in the vignette

  4. Download
    • Availability and requirements

    Project name: coMET
    Project home page: http://epigen.kcl.ac.uk/comet
    Operating system(s): Platform independent
    Programming language: R 3.1.1 or higher
    Other requirements: Bioconductor 3.1 or higher, Shiny
    License: GNU GPL 2 or higher
    Any restrictions to use by non-academics: none

    To install the development version, please visit the section "developers" of Bioconductor:

    you must install R-devel, available from:

    source("http://bioconductor.org/biocLite.R")
    biocLite()