methylCC

DOI: 10.18129/B9.bioc.methylCC    

Estimate the cell composition of whole blood in DNA methylation samples

Bioconductor version: Release (3.10)

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 "3.6") and enter:

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

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")

 

HTML R Script The qsmooth user's guide
PDF   Reference Manual
Text   NEWS

Details

biocViews DNAMethylation, MethylSeq, MethylationArray, Microarray, Sequencing, Software, WholeGenome
Version 1.0.0
In Bioconductor since BioC 3.10 (R-3.6) (< 6 months)
License CC BY 4.0
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
LinkingTo
Suggests knitr, testthat (>= 2.1.0), BiocGenerics, BiocStyle, tidyr, ggplot2
SystemRequirements
Enhances
URL https://github.com/stephaniehicks/methylCC/
BugReports https://github.com/stephaniehicks/methylCC/
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package methylCC_1.0.0.tar.gz
Windows Binary methylCC_1.0.0.zip
Mac OS X 10.11 (El Capitan) methylCC_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/methylCC
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/methylCC
Package Short Url https://bioconductor.org/packages/methylCC/
Package Downloads Report Download Stats

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