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methylclock

Methylclock - DNA methylation-based clocks

Bioconductor version: 3.23 · Package version: 1.18.0

This package allows to estimate chronological and gestational DNA methylation (DNAm) age as well as biological age using different methylation clocks. Chronological DNAm age (in years) : Horvath's clock, Hannum's clock, BNN, Horvath's skin+blood clock, PedBE clock and Wu's clock. Gestational DNAm age : Knight's clock, Bohlin's clock, Mayne's clock and Lee's clocks. Biological DNAm clocks : Levine's clock and Telomere Length's clock.

Installation

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

BiocManager::install("methylclock")

Details

MaintainerDolors Pelegri-Siso <dolors.pelegri@isglobal.org>
AuthorDolors Pelegri-Siso [aut, cre] (ORCID: <https://orcid.org/0000-0002-5993-3003>), Juan R. Gonzalez [aut] (ORCID: <https://orcid.org/0000-0003-3267-2146>)
LicenseMIT + file LICENSE
URLhttps://github.com/isglobal-brge/methylclock
Bug Reportshttps://github.com/isglobal-brge/methylclock/issues
Downloads rank442
Source branchRELEASE_3_23
biocViewsBiologicalQuestion, DNAMethylation, Normalization, Preprocessing, Software, StatisticalMethod

Documentation

Download

Dependencies

Depends: R (>= 4.1.0), methylclockData, devtools, quadprog

Imports: Rcpp (>= 1.0.6), ExperimentHub, dplyr, impute, PerformanceAnalytics, Biobase, ggpmisc, tidyverse, ggplot2, ggpubr, minfi, tibble, RPMM, stats, graphics, tidyr, gridExtra, preprocessCore, dynamicTreeCut, planet

LinkingTo: Rcpp

Suggests: BiocStyle, knitr, GEOquery, rmarkdown