coMET
This is the development version of coMET; for the stable release version, see coMET.
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns
Bioconductor version: Development (3.20)
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 lon:g as the data can be translated to genomic level and for any species.
Author: Tiphaine C. Martin [aut,cre], Thomas Hardiman [aut], Idil Yet [aut], Pei-Chien Tsai [aut], Jordana T. Bell [aut]
Maintainer: Tiphaine Martin <tiphaine.martin at mssm.edu>
citation("coMET")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("coMET")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("coMET")
coMET users guide | R Script | |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | ChIPSeq, DNAMethylation, DNASeq, DifferentialMethylation, ExomeSeq, FunctionalGenomics, Genetics, GenomeWideAssociation, MethylSeq, MethylationArray, Microarray, MotifAnnotation, RNASeq, RiboSeq, Sequencing, Software, Visualization |
Version | 1.37.0 |
In Bioconductor since | BioC 3.1 (R-3.2) (9.5 years) |
License | GPL (>= 2) |
Depends | R (>= 4.1.0), grid, utils, biomaRt, Gviz, psych |
Imports | hash, grDevices, gridExtra, rtracklayer, IRanges, S4Vectors, GenomicRanges, stats, corrplot |
System Requirements | |
URL | http://epigen.kcl.ac.uk/comet |
See More
Suggests | BiocStyle, knitr, RUnit, BiocGenerics, showtext |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | coMET_1.37.0.tar.gz |
Windows Binary | |
macOS Binary (x86_64) | coMET_1.37.0.tgz |
macOS Binary (arm64) | coMET_1.37.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/coMET |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/coMET |
Bioc Package Browser | https://code.bioconductor.org/browse/coMET/ |
Package Short Url | https://bioconductor.org/packages/coMET/ |
Package Downloads Report | Download Stats |