To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("coMET")
In most cases, you don't need to download the package archive at all.
coMET
|
This package is for version 3.2 of Bioconductor; for the stable, up-to-date release version, see coMET.
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns.
Bioconductor version: 3.2
Visualisation of EWAS results in a genomic region. In addition to phenotype-association P-values, coMET also generates plots of co-methylation patterns and provides a series of annotation tracks. It can be used to other omic-wide association scans as long as the data can be translated to genomic level and for any species.
Author: Tiphaine C. Martin, Thomas Hardiman, Idil Yet, Pei-Chien Tsai, Jordana T. Bell
Maintainer: Tiphaine Martin <tiphaine.martin at kcl.ac.uk>
Citation (from within R,
enter citation("coMET")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("coMET")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("coMET")
| coMET users guide | ||
| coMET_manual.pdf | ||
| Reference Manual | ||
| Text | NEWS | |
| Text | LICENSE |
Details
| biocViews | ChIPSeq, DNAMethylation, DNASeq, DifferentialMethylation, ExomeSeq, FunctionalGenomics, Genetics, GenomeWideAssociation, MethylSeq, MethylationArray, Microarray, RNASeq, RiboSeq, Sequencing, Software, Visualization |
| Version | 1.2.1 |
| In Bioconductor since | BioC 3.1 (R-3.2) (1 year) |
| License | GPL (>= 2) |
| Depends | R (>= 3.1.0), grid, utils, biomaRt, Gviz(>= 1.10.9), psych |
| Imports | colortools, hash, grDevices, gridExtra, rtracklayer, IRanges, S4Vectors, GenomicRanges, ggbio, ggplot2, trackViewer, stats, corrplot |
| LinkingTo | |
| Suggests | knitr, RUnit, BiocGenerics, BiocStyle |
| SystemRequirements | |
| Enhances | |
| URL | http://epigen.kcl.ac.uk/comet |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | coMET_1.2.1.tar.gz |
| Windows Binary | coMET_1.2.1.zip |
| Mac OS X 10.6 (Snow Leopard) | coMET_1.2.0.tgz |
| Mac OS X 10.9 (Mavericks) | coMET_1.2.1.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/coMET/tree/release-3.2 |
| Package Short Url | http://bioconductor.org/packages/coMET/ |
| Package Downloads Report | Download Stats |
Documentation »
Bioconductor
- Package vignettes and manuals.
- Workflows for learning and use.
- Course and conference material.
- Videos.
- Community resources and tutorials.
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations:
- Support site - for questions about Bioconductor packages
- Bioc-devel mailing list - for package developers
