methylInheritance

DOI: 10.18129/B9.bioc.methylInheritance    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see methylInheritance.

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

Bioconductor version: 3.15

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 "4.2") 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	1.20.0
In Bioconductor since	BioC 3.5 (R-3.4) (5.5 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_1.20.0.tar.gz
Windows Binary	methylInheritance_1.20.0.zip (64-bit only)
macOS Binary (x86_64)	methylInheritance_1.20.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/methylInheritance
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/methylInheritance
Package Short Url	https://bioconductor.org/packages/methylInheritance/
Package Downloads Report	Download Stats