BPRMeth

DOI: 10.18129/B9.bioc.BPRMeth    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see BPRMeth.

Model higher-order methylation profiles

Bioconductor version: 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>

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("BPRMeth")

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("BPRMeth")

 

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, ImmunoOncology, KEGG, RNASeq, Regression, Sequencing, SingleCell, Software
Version	1.8.1
In Bioconductor since	BioC 3.4 (R-3.3) (2.5 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
Links To Me
Build Report

Package Archives

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

Source Package	BPRMeth_1.8.1.tar.gz
Windows Binary	BPRMeth_1.8.1.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	BPRMeth_1.8.1.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