Package: MethylMix
Title: MethylMix: Identifying methylation driven cancer genes
Version: 2.4.0
Description: MethylMix is an algorithm implemented to identify hyper and
    hypomethylated genes for a disease. MethylMix is based on a beta mixture model
    to identify methylation states and compares them with the normal DNA methylation
    state. MethylMix uses a novel statistic, the Differential Methylation value
    or DM-value defined as the difference of a methylation state with the normal
    methylation state. Finally, matched gene expression data is used to identify,
    besides differential, functional methylation states by focusing on methylation
    changes that effect gene expression. References: Gevaert 0. MethylMix: an R
    package for identifying DNA methylation-driven genes. Bioinformatics (Oxford,
    England). 2015;31(11):1839-41. doi:10.1093/bioinformatics/btv020. Gevaert O,
    Tibshirani R, Plevritis SK. Pancancer analysis of DNA methylation-driven genes
    using MethylMix. Genome Biology. 2015;16(1):17. doi:10.1186/s13059-014-0579-8.
Depends: R (>= 3.2.0)
License: GPL-2
Encoding: UTF-8
LazyData: true
Author: Olivier Gevaert
Maintainer: Olivier Gevaert <olivier.gevaert@gmail.com>
Type: Package
Date: 2017-05-25
Imports: foreach, RPMM, RColorBrewer, ggplot2, RCurl, impute,
        data.table, limma, R.matlab, digest
Suggests: BiocStyle, doParallel, testthat, knitr, rmarkdown
biocViews:
        DNAMethylation,StatisticalMethod,DifferentialMethylation,GeneRegulation,GeneExpression,MethylationArray,DifferentialExpression,Pathways,Network
RoxygenNote: 5.0.1
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2017-05-30 23:44:02 UTC; biocbuild
