BPRMeth

DOI: 10.18129/B9.bioc.BPRMeth    

This is the development version of BPRMeth; for the stable release version, see BPRMeth.

Model higher-order methylation profiles

Bioconductor version: Development (3.8)

The BPRMeth package is a probabilistic method to quantify explicit features of methylation profiles, in a way that would make it easier to formally use such profiles in downstream modelling efforts, such as predicting gene expression levels or clustering genomic regions or cells according to their methylation profiles.

Author: Chantriolnt-Andreas Kapourani [aut, cre]

Maintainer: Chantriolnt-Andreas Kapourani <kapouranis.andreas at gmail.com>

Citation (from within R, enter citation("BPRMeth")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("BPRMeth")

Documentation

HTML R Script BPRMeth: Model higher-order methylation profiles
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews Bayesian, Clustering, Coverage, DNAMethylation, Epigenetics, FeatureExtraction, GeneExpression, GeneRegulation, Genetics, KEGG, RNASeq, Regression, Sequencing, SingleCell, Software
Version 1.7.11
In Bioconductor since BioC 3.4 (R-3.3) (1.5 years)
License GPL-3
Depends R (>= 3.4.0), GenomicRanges
Imports assertthat, methods, MASS, doParallel, parallel, e1071, earth, foreach, randomForest, stats, IRanges, S4Vectors, data.table, graphics, truncnorm, mvtnorm, Rcpp (>= 0.12.14), matrixcalc, magrittr, kernlab, ggplot2, cowplot, BiocStyle
LinkingTo Rcpp, RcppArmadillo
Suggests testthat, knitr, rmarkdown
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package BPRMeth_1.7.11.tar.gz
Windows Binary BPRMeth_1.7.11.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) BPRMeth_1.7.11.tgz
Source Repository git clone https://git.bioconductor.org/packages/BPRMeth
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/BPRMeth
Package Short Url http://bioconductor.org/packages/BPRMeth/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: