methylclock
This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see methylclock.
Methylclock - DNA methylation-based clocks
Bioconductor version: 3.14
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.
Author: Dolors Pelegri-Siso [aut, cre], Juan R. Gonzalez [aut]
Maintainer: Dolors Pelegri-Siso <dolors.pelegri at isglobal.org>
citation("methylclock")):
Installation
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("methylclock")
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("methylclock")| DNAm age using diffrent methylation clocks | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | BiologicalQuestion, DNAMethylation, Normalization, Preprocessing, Software, StatisticalMethod |
| Version | 1.0.1 |
| In Bioconductor since | BioC 3.14 (R-4.1) (2.5 years) |
| License | MIT + file LICENSE |
| 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, preprocessCore, dynamicTreeCut |
| System Requirements | |
| URL | https://github.com/isglobal-brge/methylclock |
| Bug Reports | https://github.com/isglobal-brge/methylclock/issues |
See More
| Suggests | BiocStyle, knitr, GEOquery, rmarkdown |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | methylclock_1.0.1.tar.gz |
| Windows Binary | methylclock_1.0.1.zip |
| macOS 10.13 (High Sierra) | methylclock_1.0.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/methylclock |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/methylclock |
| Bioc Package Browser | https://code.bioconductor.org/browse/methylclock/ |
| Package Short Url | https://bioconductor.org/packages/methylclock/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.14 | Source Archive |