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borealis

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

Bisulfite-seq OutlieR mEthylation At singLe-sIte reSolution

Bioconductor version: Development (3.18)

Borealis is an R library performing outlier analysis for count-based bisulfite sequencing data. It detectes outlier methylated CpG sites from bisulfite sequencing (BS-seq). The core of Borealis is modeling Beta-Binomial distributions. This can be useful for rare disease diagnoses.

Author: Garrett Jenkinson [aut, cre]

Maintainer: Garrett Jenkinson <gargar934 at gmail.com>

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

Installation

To install this package, start R (version "4.3") and enter: 

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("borealis")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF

Details

biocViews Coverage, DNAMethylation, DifferentialMethylation, Sequencing, Software
Version 1.5.0
In Bioconductor since BioC 3.15 (R-4.2) (1.5 years)
License GPL-3
Depends R (>= 4.2.0), Biobase
Imports doParallel, snow, purrr, plyr, foreach, gamlss, gamlss.dist, bsseq, methods, DSS, R.utils, utils, stats, ggplot2, cowplot, dplyr, rlang, GenomicRanges
Linking To
Suggests BiocStyle, knitr, rmarkdown, RUnit, BiocGenerics, annotatr, tidyr, TxDb.Hsapiens.UCSC.hg19.knownGene, org.Hs.eg.db
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Package Archives

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

Source Package
Windows Binary borealis_1.5.0.zip (64-bit only)
macOS Binary (x86_64) borealis_1.5.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/borealis
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/borealis
Bioc Package Browser https://code.bioconductor.org/browse/borealis/
Package Short Url https://bioconductor.org/packages/borealis/
Package Downloads Report Download Stats