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BPRMeth

Model higher-order methylation profiles

Bioconductor version: 3.23 · Package version: 1.38.0

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.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("BPRMeth")

Details

MaintainerChantriolnt-Andreas Kapourani <kapouranis.andreas@gmail.com>
AuthorChantriolnt-Andreas Kapourani [aut, cre]
LicenseGPL-3 | file LICENSE
StatusDeprecated
Downloads rank334
Source branchRELEASE_3_23
biocViewsBayesian, Clustering, Coverage, DNAMethylation, Epigenetics, FeatureExtraction, GeneExpression, GeneRegulation, Genetics, ImmunoOncology, KEGG, RNASeq, Regression, Sequencing, SingleCell, Software

Documentation

Download

Dependencies

Depends: R (>= 3.5.0), 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

Reverse dependencies

Depends On Me (1): Melissa