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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>

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

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

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
Linking To
Suggests BiocStyle, BiocGenerics, knitr, rmarkdown, RUnit, methInheritSim
System Requirements
Enhances
URL https://github.com/adeschen/methylInheritance
Bug Reports https://github.com/adeschen/methylInheritance/issues
See More
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