methylInheritance

DOI: 10.18129/B9.bioc.methylInheritance  

Permutation-Based Analysis associating Conserved Differentially Methylated Elements Across Multiple Generations to a Treatment Effect

Bioconductor version: Release (3.17)

Permutation analysis, based on Monte Carlo sampling, for testing the hypothesis that the number of conserved differentially methylated elements, between several generations, is associated to an effect inherited from a treatment and that stochastic effect can be dismissed.

Author: Astrid Deschênes [cre, aut] , Pascal Belleau [aut] , Arnaud Droit [aut]

Maintainer: Astrid Deschênes <adeschen at hotmail.com>

Installation

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

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

BiocManager::install("methylInheritance")

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("methylInheritance")

 

HTML	R Script	Permutation-Based Analysis associating Conserved Differentially Methylated Elements Across Multiple Generations to a Treatment Effect
PDF		Reference Manual
Text		NEWS

Details

biocViews	BiologicalQuestion, DNAMethylation, DifferentialMethylation, Epigenetics, ImmunoOncology, MethylSeq, Sequencing, Software, StatisticalMethod, WholeGenome
Version	1.24.0
In Bioconductor since	BioC 3.5 (R-3.4) (6.5 years)
License	Artistic-2.0
Depends	R (>= 3.5)
Imports	methylKit, BiocParallel, GenomicRanges, IRanges, S4Vectors, methods, parallel, ggplot2, gridExtra, rebus
LinkingTo
Suggests	BiocStyle, BiocGenerics, knitr, rmarkdown, RUnit, methInheritSim
SystemRequirements
Enhances
URL	https://github.com/adeschen/methylInheritance
BugReports	https://github.com/adeschen/methylInheritance/issues
Depends On Me
Imports Me
Suggests Me	methInheritSim
Links To Me
Build Report

Package Archives

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

Source Package	methylInheritance_1.24.0.tar.gz
Windows Binary	methylInheritance_1.24.0.zip (64-bit only)
macOS Binary (x86_64)	methylInheritance_1.24.0.tgz
macOS Binary (arm64)	methylInheritance_1.24.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/methylInheritance
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/methylInheritance
Bioc Package Browser	https://code.bioconductor.org/browse/methylInheritance/
Package Short Url	https://bioconductor.org/packages/methylInheritance/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.17	Source Archive