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methylCC

This is the development version of methylCC; for the stable release version, see methylCC.

Estimate the cell composition of whole blood in DNA methylation samples


Bioconductor version: Development (3.19)

A tool to estimate the cell composition of DNA methylation whole blood sample measured on any platform technology (microarray and sequencing).

Author: Stephanie C. Hicks [aut, cre] , Rafael Irizarry [aut]

Maintainer: Stephanie C. Hicks <shicks19 at jhu.edu>

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

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("methylCC")

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("methylCC")
The methylCC user's guide HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews DNAMethylation, MethylSeq, MethylationArray, Microarray, Sequencing, Software, WholeGenome
Version 1.17.0
In Bioconductor since BioC 3.10 (R-3.6) (4.5 years)
License GPL-3
Depends R (>= 3.6), FlowSorted.Blood.450k
Imports Biobase, GenomicRanges, IRanges, S4Vectors, dplyr, magrittr, minfi, bsseq, quadprog, plyranges, stats, utils, bumphunter, genefilter, methods, IlluminaHumanMethylation450kmanifest, IlluminaHumanMethylation450kanno.ilmn12.hg19
System Requirements
URL https://github.com/stephaniehicks/methylCC/
Bug Reports https://github.com/stephaniehicks/methylCC/
See More
Suggests rmarkdown, knitr, testthat (>= 2.1.0), BiocGenerics, BiocStyle, tidyr, ggplot2
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
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Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package methylCC_1.17.0.tar.gz
Windows Binary methylCC_1.17.0.zip
macOS Binary (x86_64) methylCC_1.17.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/methylCC
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/methylCC
Bioc Package Browser https://code.bioconductor.org/browse/methylCC/
Package Short Url https://bioconductor.org/packages/methylCC/
Package Downloads Report Download Stats