epimutacions
This is the development version of epimutacions; for the stable release version, see epimutacions.
All Bioconductor versions of epimutacions
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15
Robust outlier identification for DNA methylation data
Bioconductor version: 3.24 · Package version: 1.17.2
The package includes some statistical outlier detection methods for epimutations detection in DNA methylation data. The methods included in the package are MANOVA, Multivariate linear models, isolation forest, robust mahalanobis distance, quantile and beta. The methods compare a case sample with a suspected disease against a reference panel (composed of healthy individuals) to identify epimutations in the given case sample. It also contains functions to annotate and visualize the identified epimutations.
Author: Dolors Pelegri-Siso [aut, cre] 
, Juan R. Gonzalez [aut] , Carlos Ruiz-Arenas [aut] , Carles Hernandez-Ferrer [aut] , Leire Abarrategui [aut]
Maintainer: Dolors Pelegri-Siso <dolors.pelegri at isglobal.org>
Citation
From within R, enter citation("epimutacions"):
Dolors Pelegri-Siso, Juan R. Gonzalez, Carlos Ruiz-Arenas, Carles Hernandez-Ferrer, Leire Abarrategui. epimutacions: Robust outlier identification for DNA methylation data. doi:10.18129/B9.bioc.epimutacions, R package version 1.17.2, https://bioconductor.org/packages/epimutacions.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("epimutacions")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.17.2 |
| License | MIT + file LICENSE |
| URL | https://github.com/isglobal-brge/epimutacions |
| Bug Reports | https://github.com/isglobal-brge/epimutacions/issues |
| Last updated | 2026-09-10 |
| In Bioconductor since | BioC 3.15 (R-4.2) (4 years) |
| Downloads rank | 1302 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | BiologicalQuestion, DNAMethylation, Normalization, Preprocessing, Software, StatisticalMethod |
| Package Short Url | https://bioconductor.org/packages/epimutacions/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("epimutacions")| The epimutacions User's Guide | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | epimutacions_1.17.2.tar.gz |
| Windows binary (x86_64) | epimutacions_1.17.2.zip |
| macOS binary (arm64) | epimutacions_1.17.2.tgz |
| macOS binary (x86_64) | epimutacions_1.17.2.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/epimutacions |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/epimutacions |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 4.3.0), epimutacionsData
Imports: minfi, bumphunter, isotree, robustbase, ggplot2, GenomicRanges, GenomicFeatures, IRanges, SummarizedExperiment, stats, matrixStats, BiocGenerics, S4Vectors, utils, biomaRt, BiocParallel, GenomeInfoDb, AnnotationDbi, tibble, grid
Suggests: testthat, knitr, rmarkdown, BiocStyle, a4Base, kableExtra, methods, grDevices, reshape2, purrr, ggrepel, gridExtra, Gviz, rtracklayer, AnnotationHub, ExperimentHub, Homo.sapiens, TxDb.Hsapiens.UCSC.hg19.knownGene, TxDb.Hsapiens.UCSC.hg18.knownGene, TxDb.Hsapiens.UCSC.hg38.knownGene, IlluminaHumanMethylation450kmanifest, IlluminaHumanMethylationEPICmanifest, IlluminaHumanMethylation450kanno.ilmn12.hg19, IlluminaHumanMethylationEPICanno.ilm10b2.hg19